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##The following is written by Savanna van Mesdag, going through the relevant coding and analyses for the biodiversity analyses for the Barrow plant communities.
#setwd#
#To run the following code to carry out the analyses, the following packages must be installed#
install.packages("iNEXT", repos = "http://chao.stat.nthu.edu.tw/wordpress/software_download/")
## Installing package into 'C:/Users/Savanna/AppData/Local/R/win-library/4.3'
## (as 'lib' is unspecified)
## Warning: unable to access index for repository http://chao.stat.nthu.edu.tw/wordpress/software_download/src/contrib:
## cannot open URL 'http://chao.stat.nthu.edu.tw/wordpress/software_download/src/contrib/PACKAGES'
## Warning: package 'iNEXT' is not available for this version of R
##
## A version of this package for your version of R might be available elsewhere,
## see the ideas at
## https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
## Warning: unable to access index for repository http://chao.stat.nthu.edu.tw/wordpress/software_download/bin/windows/contrib/4.3:
## cannot open URL 'http://chao.stat.nthu.edu.tw/wordpress/software_download/bin/windows/contrib/4.3/PACKAGES'
install.packages('devtools', repos = "https://github.com/r-lib/devtools")
## Installing package into 'C:/Users/Savanna/AppData/Local/R/win-library/4.3'
## (as 'lib' is unspecified)
## Warning: unable to access index for repository https://github.com/r-lib/devtools/src/contrib:
## cannot open URL 'https://github.com/r-lib/devtools/src/contrib/PACKAGES'
## Warning: package 'devtools' is not available for this version of R
##
## A version of this package for your version of R might be available elsewhere,
## see the ideas at
## https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
## Warning: unable to access index for repository https://github.com/r-lib/devtools/bin/windows/contrib/4.3:
## cannot open URL 'https://github.com/r-lib/devtools/bin/windows/contrib/4.3/PACKAGES'
install.packages('AnneChao/iNEXT', repos = "http://chao.stat.nthu.edu.tw/wordpress/software_download/")
## Installing package into 'C:/Users/Savanna/AppData/Local/R/win-library/4.3'
## (as 'lib' is unspecified)
## Warning: unable to access index for repository http://chao.stat.nthu.edu.tw/wordpress/software_download/src/contrib:
## cannot open URL 'http://chao.stat.nthu.edu.tw/wordpress/software_download/src/contrib/PACKAGES'
## Warning: package 'AnneChao/iNEXT' is not available for this version of R
##
## A version of this package for your version of R might be available elsewhere,
## see the ideas at
## https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
## Warning: unable to access index for repository http://chao.stat.nthu.edu.tw/wordpress/software_download/bin/windows/contrib/4.3:
## cannot open URL 'http://chao.stat.nthu.edu.tw/wordpress/software_download/bin/windows/contrib/4.3/PACKAGES'
install.packages("ggthemes", repos = "https://github.com/jrnold/ggthemes")
## Installing package into 'C:/Users/Savanna/AppData/Local/R/win-library/4.3'
## (as 'lib' is unspecified)
## Warning: unable to access index for repository https://github.com/jrnold/ggthemes/src/contrib:
## cannot open URL 'https://github.com/jrnold/ggthemes/src/contrib/PACKAGES'
## Warning: package 'ggthemes' is not available for this version of R
##
## A version of this package for your version of R might be available elsewhere,
## see the ideas at
## https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
## Warning: unable to access index for repository https://github.com/jrnold/ggthemes/bin/windows/contrib/4.3:
## cannot open URL 'https://github.com/jrnold/ggthemes/bin/windows/contrib/4.3/PACKAGES'
install.packages("vegan", repos = " https://github.com/vegandevs/vegan")
## Installing package into 'C:/Users/Savanna/AppData/Local/R/win-library/4.3'
## (as 'lib' is unspecified)
## Warning: unable to access index for repository https://github.com/vegandevs/vegan/src/contrib:
## cannot open URL ' https://github.com/vegandevs/vegan/src/contrib/PACKAGES'
## Warning: package 'vegan' is not available for this version of R
##
## A version of this package for your version of R might be available elsewhere,
## see the ideas at
## https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
## Warning: unable to access index for repository https://github.com/vegandevs/vegan/bin/windows/contrib/4.3:
## cannot open URL ' https://github.com/vegandevs/vegan/bin/windows/contrib/4.3/PACKAGES'
##The packages also need to be loaded prior to running the analyses and producing graphs#
library(devtools)
## Loading required package: usethis
library(iNEXT)
library(ggplot2)
library(ggthemes)
## Warning: package 'ggthemes' was built under R version 4.3.1
library(vegan)
## Loading required package: permute
##
## Attaching package: 'permute'
## The following object is masked from 'package:devtools':
##
## check
## Loading required package: lattice
## This is vegan 2.6-4
#Loading Barrow data
urlfile1 <- 'https://raw.githubusercontent.com/Savannankvm/Biodiversity-analyses-for-six-study-sites/PhD-files/Barrow_Abundance_Data.csv?token=GHSAT0AAAAAACG4POBNQ6K6T4V5KYG6HMXSZHOAFWQ'
Barrow_Nos <-read.csv(urlfile1)
#To look at the Barrow data#
print(Barrow_Nos)
## Quadrat.1 Quadrat.2 Quadrat.3 Quadrat.4 Quadrat.5 Quadrat.6 Quadrat.7
## 1 4 0 127 0 32 0 0
## 2 0 0 0 0 0 0 1
## 3 0 0 0 0 0 8 0
## 4 4 6 1 0 6 0 0
## 5 0 0 0 0 0 0 0
## 6 0 30 0 0 0 0 0
## 7 0 30 0 0 0 0 0
## 8 0 0 138 9 8 0 0
## 9 0 0 0 0 0 1 0
## 10 0 30 20 110 0 0 10
## 11 0 0 0 0 0 0 120
## 12 0 0 0 0 0 0 0
## 13 0 0 0 0 0 0 0
## 14 0 0 1 2 1 0 1
## 15 0 0 0 0 0 0 54
## 16 0 0 0 0 2 0 0
## 17 0 0 0 0 0 0 0
## 18 0 0 14 0 0 0 0
## 19 66 0 0 0 2 0 0
## 20 0 19 1 39 2 54 42
## 21 0 87 88 0 1 0 0
## 22 0 0 0 0 0 1 0
## 23 0 0 0 0 1 0 0
## 24 0 55 0 50 3 169 10
## 25 0 5 1 25 2 0 0
## 26 0 0 0 0 0 0 0
## 27 0 0 0 0 0 0 0
## 28 0 0 0 1 0 0 0
## 29 0 0 0 0 0 0 42
## 30 18 0 0 0 30 0 0
## 31 1 0 0 0 0 0 0
## 32 0 12 0 1 3 2 0
## 33 0 0 0 0 0 85 2
## 34 0 67 18 31 12 140 0
## 35 3 3 0 0 0 0 0
## 36 0 0 0 0 0 0 0
## 37 0 0 0 0 0 0 0
## 38 22 0 0 0 4 0 0
## 39 0 0 0 0 3 0 1
## 40 0 0 0 0 0 3 0
## 41 0 0 0 0 0 0 37
## 42 0 0 0 0 0 0 2
## 43 0 0 0 0 160 0 0
## 44 0 0 0 1 0 0 0
## 45 0 0 0 0 0 0 0
## 46 0 34 10 0 0 0 0
## 47 0 0 0 0 0 0 0
## 48 0 0 0 0 0 1 0
## 49 4 0 0 0 0 0 0
## 50 0 0 0 0 0 0 2
## 51 2 0 1 0 0 0 0
## 52 8 64 22 8 2 0 2
## 53 0 2 0 0 0 0 0
## 54 0 0 4 17 0 0 2
## 55 0 0 0 0 3 0 0
## Quadrat.8 Quadrat.9 Quadrat.10 Quadrat.11
## 1 0 0 0 0
## 2 5 0 0 0
## 3 0 0 5 0
## 4 2 0 0 4
## 5 2 0 0 0
## 6 0 0 0 0
## 7 0 0 0 0
## 8 0 0 0 0
## 9 0 0 0 0
## 10 0 0 0 0
## 11 40 0 0 0
## 12 0 2 0 5
## 13 14 1 0 0
## 14 0 0 0 0
## 15 15 0 0 0
## 16 0 0 1 0
## 17 0 25 0 6
## 18 7 2 1 4
## 19 0 0 0 0
## 20 19 22 41 44
## 21 0 0 2 0
## 22 0 0 0 0
## 23 0 0 0 0
## 24 30 0 82 4
## 25 0 0 5 0
## 26 0 0 10 0
## 27 0 0 0 22
## 28 0 0 0 0
## 29 0 0 0 0
## 30 0 0 0 0
## 31 0 0 0 0
## 32 0 2 0 24
## 33 0 2 5 0
## 34 14 2 98 17
## 35 0 3 0 0
## 36 153 0 0 0
## 37 0 1 0 0
## 38 0 3 0 14
## 39 3 0 0 3
## 40 0 0 0 0
## 41 1 0 0 2
## 42 0 5 0 0
## 43 0 0 0 0
## 44 0 0 0 0
## 45 0 1 0 0
## 46 0 0 0 0
## 47 0 6 0 0
## 48 0 0 0 0
## 49 0 0 0 0
## 50 0 0 0 0
## 51 0 4 0 6
## 52 0 0 0 0
## 53 0 0 0 0
## 54 0 0 0 0
## 55 123 1 0 0
#colSums to establish sample size for each of the quadrats.
colSums(Barrow_Nos)
## Quadrat.1 Quadrat.2 Quadrat.3 Quadrat.4 Quadrat.5 Quadrat.6 Quadrat.7
## 132 444 446 294 277 464 328
## Quadrat.8 Quadrat.9 Quadrat.10 Quadrat.11
## 428 82 250 155
#Setting m to sample size for Quadrat 1 (132 individuals.) This will give me observed #qD value that will be most representative for Quadrat and Community. Will do the same #for the other 10 communities below.
m <- c(132)
Barrow_Datam <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = m)
Barrow_Datam
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 132 Observed 0 10.000000 8.524239 11.475761 0.9925382
## 2 Quadrat.2 132 Rarefaction 0 12.857628 12.076397 13.638858 0.9879180
## 3 Quadrat.2 443 Rarefaction 0 14.000000 13.208628 14.791372 1.0000000
## 4 Quadrat.2 444 Observed 0 14.000000 13.208055 14.791945 1.0000000
## 5 Quadrat.2 445 Extrapolation 0 14.000000 13.207471 14.792529 1.0000000
## 6 Quadrat.3 132 Rarefaction 0 10.197489 9.113006 11.281972 0.9843032
## 7 Quadrat.3 445 Rarefaction 0 13.988789 11.012859 16.964720 0.9887892
## 8 Quadrat.3 446 Observed 0 14.000000 11.018614 16.981386 0.9888018
## 9 Quadrat.3 447 Extrapolation 0 14.011198 11.024165 16.998231 0.9888144
## 10 Quadrat.4 132 Rarefaction 0 10.032058 8.322506 11.741609 0.9854327
## 11 Quadrat.4 293 Rarefaction 0 11.989796 8.852577 15.127015 0.9897959
## 12 Quadrat.4 294 Observed 0 12.000000 8.854821 15.145179 0.9898191
## 13 Quadrat.4 295 Extrapolation 0 12.010181 8.855952 15.164410 0.9898422
## 14 Quadrat.5 132 Rarefaction 0 15.397332 13.292756 17.501909 0.9554301
## 15 Quadrat.5 276 Rarefaction 0 18.989170 16.159780 21.818560 0.9891697
## 16 Quadrat.5 277 Observed 0 19.000000 16.166375 21.833625 0.9892989
## 17 Quadrat.5 278 Extrapolation 0 19.010701 16.172834 21.848568 0.9894266
## 18 Quadrat.6 132 Rarefaction 0 6.909497 5.528330 8.290664 0.9855357
## 19 Quadrat.6 463 Rarefaction 0 9.993534 6.936483 13.050586 0.9935345
## 20 Quadrat.6 464 Observed 0 10.000000 6.938951 13.061049 0.9935438
## 21 Quadrat.6 465 Extrapolation 0 10.006456 6.941194 13.071719 0.9935531
## 22 Quadrat.7 132 Rarefaction 0 11.415039 9.971861 12.858217 0.9721341
## 23 Quadrat.7 327 Rarefaction 0 14.990854 12.659806 17.321902 0.9908537
## 24 Quadrat.7 328 Observed 0 15.000000 12.663762 17.336238 0.9909460
## 25 Quadrat.7 329 Extrapolation 0 15.009054 12.667610 17.350498 0.9910373
## 26 Quadrat.8 132 Rarefaction 0 11.777810 10.847504 12.708115 0.9827498
## 27 Quadrat.8 427 Rarefaction 0 13.997664 12.394461 15.600866 0.9976636
## 28 Quadrat.8 428 Observed 0 14.000000 12.394479 15.605521 0.9976852
## 29 Quadrat.8 429 Extrapolation 0 14.002315 12.394467 15.610163 0.9977067
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.391690 18.510749 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.422830 18.577170 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.452491 18.642149 0.9540968
## 33 Quadrat.9 132 Extrapolation 0 17.234773 13.757204 20.712342 0.9896492
## 34 Quadrat.10 132 Rarefaction 0 8.766625 7.396902 10.136348 0.9853580
## 35 Quadrat.10 249 Rarefaction 0 9.992000 8.096298 11.887702 0.9920000
## 36 Quadrat.10 250 Observed 0 10.000000 8.099332 11.900668 0.9920320
## 37 Quadrat.10 251 Extrapolation 0 10.007968 8.101079 11.914857 0.9920639
## 38 Quadrat.11 132 Rarefaction 0 12.974684 11.876666 14.072702 0.9975639
## 39 Quadrat.11 154 Rarefaction 0 13.000000 11.894217 14.105783 1.0000000
## 40 Quadrat.11 155 Observed 0 13.000000 11.893400 14.106600 1.0000000
## 41 Quadrat.11 156 Extrapolation 0 13.000000 11.892697 14.107303 1.0000000
## SC.LCL SC.UCL
## 1 0.9773487 1.0000000
## 2 0.9843943 0.9914416
## 3 0.9966441 1.0000000
## 4 0.9966516 1.0000000
## 5 0.9966650 1.0000000
## 6 0.9767887 0.9918177
## 7 0.9822115 0.9953670
## 8 0.9820527 0.9955510
## 9 0.9820636 0.9955652
## 10 0.9744306 0.9964348
## 11 0.9805389 0.9990530
## 12 0.9796494 0.9999887
## 13 0.9796794 1.0000000
## 14 0.9432803 0.9675800
## 15 0.9783573 0.9999821
## 16 0.9784724 1.0000000
## 17 0.9785864 1.0000000
## 18 0.9776427 0.9934288
## 19 0.9878892 0.9991798
## 20 0.9875589 0.9995287
## 21 0.9875722 0.9995339
## 22 0.9640349 0.9802333
## 23 0.9824022 0.9993052
## 24 0.9824863 0.9994056
## 25 0.9825697 0.9995050
## 26 0.9773123 0.9881873
## 27 0.9932064 1.0000000
## 28 0.9929767 1.0000000
## 29 0.9930070 1.0000000
## 30 0.9193486 0.9830905
## 31 0.9206837 0.9846763
## 32 0.9219930 0.9862006
## 33 0.9619623 1.0000000
## 34 0.9773594 0.9933567
## 35 0.9842147 0.9997853
## 36 0.9833682 1.0000000
## 37 0.9834345 1.0000000
## 38 0.9903970 1.0000000
## 39 0.9925783 1.0000000
## 40 0.9923293 1.0000000
## 41 0.9924263 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.402640 12.597360
## 2 Quadrat.2 0.9879180 132 Rarefaction 0 12.857628 11.940869 13.774386
## 3 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.644325 15.355675
## 4 Quadrat.3 0.9843032 132 Rarefaction 0 10.197489 6.522296 13.872683
## 5 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 7.899006 20.056645
## 6 Quadrat.3 0.9888018 446 Observed 0 14.000000 7.908352 20.091648
## 7 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 7.911124 20.111272
## 8 Quadrat.4 0.9854327 132 Rarefaction 0 10.032058 4.687523 15.376593
## 9 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 4.961859 19.003394
## 10 Quadrat.4 0.9898191 294 Observed 0 12.000000 4.969149 19.030851
## 11 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 4.972842 19.047520
## 12 Quadrat.5 0.9554301 132 Rarefaction 0 15.397332 12.360994 18.433670
## 13 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 12.533768 25.432378
## 14 Quadrat.5 0.9892989 277 Observed 0 19.000000 12.514948 25.485052
## 15 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 12.488502 25.532900
## 16 Quadrat.6 0.9855357 132 Rarefaction 0 6.909497 3.821036 9.997958
## 17 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 4.243611 15.736878
## 18 Quadrat.6 0.9935438 464 Observed 0 10.000000 4.249511 15.750489
## 19 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 4.251998 15.760915
## 20 Quadrat.7 0.9721341 132 Rarefaction 0 11.415039 9.269954 13.560123
## 21 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 9.119147 20.857308
## 22 Quadrat.7 0.9909460 328 Observed 0 15.000000 9.098069 20.901931
## 23 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 9.073873 20.944235
## 24 Quadrat.8 0.9827498 132 Rarefaction 0 11.777809 10.430121 13.125497
## 25 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.116574 16.876630
## 26 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.115713 16.884287
## 27 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.113356 16.891273
## 28 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 11.594660 20.233910
## 29 Quadrat.9 0.9526800 82 Observed 0 16.000000 11.607692 20.392308
## 30 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 11.577019 20.517621
## 31 Quadrat.9 0.9896492 132 Extrapolation 0 17.234773 10.258310 24.211235
## 32 Quadrat.10 0.9853580 132 Rarefaction 0 8.766625 6.787453 10.745797
## 33 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 7.204454 12.763587
## 34 Quadrat.10 0.9920320 250 Observed 0 10.000000 7.216186 12.783814
## 35 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 7.218951 12.796985
## 36 Quadrat.11 0.9975639 132 Rarefaction 0 12.974684 11.619708 14.329660
## 37 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.545333 14.454667
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.8691515 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4998833 4.122438
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4035868 2.561447
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.7977828 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2817111 3.926399
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1861034 3.105144
## 7 Quadrat.11 Species richness 13.000000 13.000000 1.0546081 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.6463805 7.767861
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.7451218 5.390909
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.4591428 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3367003 9.312113
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3817399 7.740884
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.2978614 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2944504 5.403053
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2105740 4.098374
## 16 Quadrat.4 Species richness 12.000000 16.484694 3.6699459 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3982936 5.727643
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3537318 4.131500
## 19 Quadrat.5 Species richness 19.000000 19.896751 5.8378054 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4732894 4.341611
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2361072 2.310655
## 22 Quadrat.6 Species richness 10.000000 14.490302 5.5322504 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1792756 4.005695
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1355992 3.443475
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.7862605 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3748946 5.842596
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3401092 4.184855
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.8205193 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3241424 5.711310
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2504636 3.893841
## 31 Quadrat.9 Species richness 16.000000 17.580488 4.4956766 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.2949158 6.931156
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.9288472 3.975305
## UCL
## 1 14.159682
## 2 6.081944
## 3 4.143478
## 4 17.475554
## 5 5.030686
## 6 3.834656
## 7 15.066994
## 8 10.301626
## 9 8.311732
## 10 14.899903
## 11 10.631954
## 12 9.237277
## 13 36.321160
## 14 6.557277
## 15 4.923809
## 16 23.677656
## 17 7.288926
## 18 5.518103
## 19 31.338639
## 20 6.196872
## 21 3.236178
## 22 25.333313
## 23 4.708442
## 24 3.975014
## 25 25.278154
## 26 7.312156
## 27 5.518058
## 28 17.817568
## 29 6.981925
## 30 4.875641
## 31 26.391852
## 32 12.007133
## 33 7.616318
Barrow_Datam_1 <- iNEXT(Barrow_Nos, q=c(0,1,2), datatype= "abundance", size = m)
Barrow_Datam_1
## Compare 11 assemblages with Hill number order q = 0, 1, 2.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 132 Observed 0 10.000000 8.665390 11.334610
## 2 Quadrat.1 132 Observed 1 4.909318 4.011889 5.806747
## 3 Quadrat.1 132 Observed 2 3.293762 2.539686 4.047837
## 4 Quadrat.2 132 Rarefaction 0 12.857628 12.079818 13.635437
## 5 Quadrat.2 443 Rarefaction 0 14.000000 12.967740 15.032260
## 6 Quadrat.2 444 Observed 0 14.000000 12.966671 15.033329
## 7 Quadrat.2 445 Extrapolation 0 14.000000 12.965960 15.034040
## 8 Quadrat.2 132 Rarefaction 1 9.459158 8.965474 9.952842
## 9 Quadrat.2 443 Rarefaction 1 9.823991 9.299929 10.348052
## 10 Quadrat.2 444 Observed 1 9.824330 9.300242 10.348419
## 11 Quadrat.2 445 Extrapolation 1 9.824669 9.300554 10.348785
## 12 Quadrat.2 132 Rarefaction 2 8.033307 7.501064 8.565551
## 13 Quadrat.2 443 Rarefaction 2 8.347955 7.770813 8.925098
## 14 Quadrat.2 444 Observed 2 8.348268 7.771080 8.925456
## 15 Quadrat.2 445 Extrapolation 2 8.348579 7.771346 8.925813
## 16 Quadrat.3 132 Rarefaction 0 10.197489 9.079604 11.315374
## 17 Quadrat.3 445 Rarefaction 0 13.988789 11.040208 16.937371
## 18 Quadrat.3 446 Observed 0 14.000000 11.046353 16.953647
## 19 Quadrat.3 447 Extrapolation 0 14.011198 11.052297 16.970099
## 20 Quadrat.3 132 Rarefaction 1 5.617833 5.162818 6.072849
## 21 Quadrat.3 445 Rarefaction 1 5.827069 5.334727 6.319411
## 22 Quadrat.3 446 Observed 1 5.827336 5.334941 6.319732
## 23 Quadrat.3 447 Extrapolation 1 5.827603 5.335154 6.320052
## 24 Quadrat.3 132 Rarefaction 2 4.394210 4.045582 4.742837
## 25 Quadrat.3 445 Rarefaction 2 4.475778 4.112258 4.839298
## 26 Quadrat.3 446 Observed 2 4.475856 4.112322 4.839391
## 27 Quadrat.3 447 Extrapolation 2 4.475934 4.112385 4.839483
## 28 Quadrat.4 132 Rarefaction 0 10.032058 8.729494 11.334621
## 29 Quadrat.4 293 Rarefaction 0 11.989796 9.615109 14.364483
## 30 Quadrat.4 294 Observed 0 12.000000 9.618891 14.381109
## 31 Quadrat.4 295 Extrapolation 0 12.010181 9.621778 14.398584
## 32 Quadrat.4 132 Rarefaction 1 6.166823 5.547878 6.785767
## 33 Quadrat.4 293 Rarefaction 1 6.330211 5.685242 6.975180
## 34 Quadrat.4 294 Observed 1 6.330739 5.685696 6.975782
## 35 Quadrat.4 295 Extrapolation 1 6.331265 5.686149 6.976382
## 36 Quadrat.4 132 Rarefaction 2 4.688936 4.069920 5.307951
## 37 Quadrat.4 293 Rarefaction 2 4.762630 4.121276 5.403984
## 38 Quadrat.4 294 Observed 2 4.762839 4.121421 5.404257
## 39 Quadrat.4 295 Extrapolation 2 4.763046 4.121565 5.404527
## 40 Quadrat.5 132 Rarefaction 0 15.397332 13.187256 17.607409
## 41 Quadrat.5 276 Rarefaction 0 18.989170 15.802717 22.175622
## 42 Quadrat.5 277 Observed 0 19.000000 15.807322 22.192678
## 43 Quadrat.5 278 Extrapolation 0 19.010701 15.811796 22.209606
## 44 Quadrat.5 132 Rarefaction 1 4.853180 4.101994 5.604365
## 45 Quadrat.5 276 Rarefaction 1 5.075744 4.275580 5.875908
## 46 Quadrat.5 277 Observed 1 5.076505 4.276168 5.876843
## 47 Quadrat.5 278 Extrapolation 1 5.077264 4.276752 5.877775
## 48 Quadrat.5 132 Rarefaction 2 2.736650 2.359698 3.113601
## 49 Quadrat.5 276 Rarefaction 2 2.755710 2.371861 3.139559
## 50 Quadrat.5 277 Observed 2 2.755773 2.371902 3.139645
## 51 Quadrat.5 278 Extrapolation 2 2.755837 2.371942 3.139731
## 52 Quadrat.6 132 Rarefaction 0 6.909497 5.465106 8.353888
## 53 Quadrat.6 463 Rarefaction 0 9.993534 6.663875 13.323194
## 54 Quadrat.6 464 Observed 0 10.000000 6.666062 13.333938
## 55 Quadrat.6 465 Extrapolation 0 10.006456 6.667881 13.345031
## 56 Quadrat.6 132 Rarefaction 1 4.179489 3.843997 4.514980
## 57 Quadrat.6 463 Rarefaction 1 4.290416 3.912103 4.668729
## 58 Quadrat.6 464 Observed 1 4.290540 3.912175 4.668905
## 59 Quadrat.6 465 Extrapolation 1 4.290664 3.912248 4.669080
## 60 Quadrat.6 132 Rarefaction 2 3.634645 3.377637 3.891653
## 61 Quadrat.6 463 Rarefaction 2 3.687666 3.421757 3.953574
## 62 Quadrat.6 464 Observed 2 3.687712 3.421795 3.953628
## 63 Quadrat.6 465 Extrapolation 2 3.687758 3.421834 3.953682
## 64 Quadrat.7 132 Rarefaction 0 11.415039 9.918963 12.911114
## 65 Quadrat.7 327 Rarefaction 0 14.990854 12.628280 17.353427
## 66 Quadrat.7 328 Observed 0 15.000000 12.632098 17.367902
## 67 Quadrat.7 329 Extrapolation 0 15.009054 12.635759 17.382350
## 68 Quadrat.7 132 Rarefaction 1 6.178858 5.604450 6.753266
## 69 Quadrat.7 327 Rarefaction 1 6.414833 5.807262 7.022404
## 70 Quadrat.7 328 Observed 1 6.415378 5.807752 7.023005
## 71 Quadrat.7 329 Extrapolation 1 6.415922 5.808240 7.023604
## 72 Quadrat.7 132 Rarefaction 2 4.713915 4.179619 5.248212
## 73 Quadrat.7 327 Rarefaction 2 4.794980 4.240045 5.349915
## 74 Quadrat.7 328 Observed 2 4.795151 4.240172 5.350129
## 75 Quadrat.7 329 Extrapolation 2 4.795320 4.240298 5.350342
## 76 Quadrat.8 132 Rarefaction 0 11.777810 10.766701 12.788919
## 77 Quadrat.8 427 Rarefaction 0 13.997664 12.431569 15.563758
## 78 Quadrat.8 428 Observed 0 14.000000 12.431529 15.568471
## 79 Quadrat.8 429 Extrapolation 0 14.002315 12.431465 15.573164
## 80 Quadrat.8 132 Rarefaction 1 6.011288 5.258562 6.764015
## 81 Quadrat.8 427 Rarefaction 1 6.244162 5.448608 7.039716
## 82 Quadrat.8 428 Observed 1 6.244415 5.448812 7.040019
## 83 Quadrat.8 429 Extrapolation 1 6.244668 5.449014 7.040322
## 84 Quadrat.8 132 Rarefaction 2 4.275118 3.694910 4.855327
## 85 Quadrat.8 427 Rarefaction 2 4.350257 3.745391 4.955124
## 86 Quadrat.8 428 Observed 2 4.350337 3.745444 4.955230
## 87 Quadrat.8 429 Extrapolation 2 4.350417 3.745497 4.955336
## 88 Quadrat.9 81 Rarefaction 0 15.951220 13.462258 18.440181
## 89 Quadrat.9 82 Observed 0 16.000000 13.495650 18.504350
## 90 Quadrat.9 83 Extrapolation 0 16.047320 13.527505 18.567135
## 91 Quadrat.9 132 Extrapolation 0 17.234773 13.812160 20.657386
## 92 Quadrat.9 81 Rarefaction 1 8.437735 6.630997 10.244473
## 93 Quadrat.9 82 Observed 1 8.450869 6.640626 10.261111
## 94 Quadrat.9 83 Extrapolation 1 8.463836 6.650129 10.277542
## 95 Quadrat.9 132 Extrapolation 1 8.932639 6.990328 10.874951
## 96 Quadrat.9 81 Rarefaction 2 5.471837 4.111141 6.832534
## 97 Quadrat.9 82 Observed 2 5.475570 4.112849 6.838291
## 98 Quadrat.9 83 Extrapolation 2 5.479218 4.114518 6.843918
## 99 Quadrat.9 132 Extrapolation 2 5.592621 4.165652 7.019590
## 100 Quadrat.10 132 Rarefaction 0 8.766625 7.102050 10.431200
## 101 Quadrat.10 249 Rarefaction 0 9.992000 7.818389 12.165611
## 102 Quadrat.10 250 Observed 0 10.000000 7.822151 12.177849
## 103 Quadrat.10 251 Extrapolation 0 10.007968 7.825593 12.190343
## 104 Quadrat.10 132 Rarefaction 1 4.289710 3.748223 4.831197
## 105 Quadrat.10 249 Rarefaction 1 4.372858 3.810741 4.934974
## 106 Quadrat.10 250 Observed 1 4.373262 3.811049 4.935474
## 107 Quadrat.10 251 Extrapolation 1 4.373664 3.811356 4.935971
## 108 Quadrat.10 132 Rarefaction 2 3.406166 3.030756 3.781576
## 109 Quadrat.10 249 Rarefaction 2 3.435819 3.052549 3.819088
## 110 Quadrat.10 250 Observed 2 3.435954 3.052648 3.819259
## 111 Quadrat.10 251 Extrapolation 2 3.436088 3.052747 3.819429
## 112 Quadrat.11 132 Rarefaction 0 12.974684 12.011460 13.937908
## 113 Quadrat.11 154 Rarefaction 0 13.000000 12.066180 13.933820
## 114 Quadrat.11 155 Observed 0 13.000000 12.066311 13.933689
## 115 Quadrat.11 156 Extrapolation 0 13.000000 12.066836 13.933164
## 116 Quadrat.11 132 Rarefaction 1 8.616984 7.599324 9.634644
## 117 Quadrat.11 154 Rarefaction 1 8.678467 7.653531 9.703403
## 118 Quadrat.11 155 Observed 1 8.680817 7.655612 9.706023
## 119 Quadrat.11 156 Extrapolation 1 8.683151 7.657678 9.708624
## 120 Quadrat.11 132 Rarefaction 2 6.560505 5.595211 7.525799
## 121 Quadrat.11 154 Rarefaction 2 6.600529 5.622661 7.578398
## 122 Quadrat.11 155 Observed 2 6.602088 5.623728 7.580449
## 123 Quadrat.11 156 Extrapolation 2 6.603628 5.624783 7.582474
## SC SC.LCL SC.UCL
## 1 0.9925382 0.9748464 1.0000000
## 2 0.9925382 0.9748464 1.0000000
## 3 0.9925382 0.9748464 1.0000000
## 4 0.9879180 0.9841687 0.9916673
## 5 1.0000000 0.9970207 1.0000000
## 6 1.0000000 0.9971318 1.0000000
## 7 1.0000000 0.9971451 1.0000000
## 8 0.9879180 0.9841687 0.9916673
## 9 1.0000000 0.9970207 1.0000000
## 10 1.0000000 0.9971318 1.0000000
## 11 1.0000000 0.9971451 1.0000000
## 12 0.9879180 0.9841687 0.9916673
## 13 1.0000000 0.9970207 1.0000000
## 14 1.0000000 0.9971318 1.0000000
## 15 1.0000000 0.9971451 1.0000000
## 16 0.9843032 0.9760722 0.9925341
## 17 0.9887892 0.9825107 0.9950678
## 18 0.9888018 0.9823581 0.9952455
## 19 0.9888144 0.9823686 0.9952602
## 20 0.9843032 0.9760722 0.9925341
## 21 0.9887892 0.9825107 0.9950678
## 22 0.9888018 0.9823581 0.9952455
## 23 0.9888144 0.9823686 0.9952602
## 24 0.9843032 0.9760722 0.9925341
## 25 0.9887892 0.9825107 0.9950678
## 26 0.9888018 0.9823581 0.9952455
## 27 0.9888144 0.9823686 0.9952602
## 28 0.9854327 0.9765700 0.9942953
## 29 0.9897959 0.9813580 0.9982339
## 30 0.9898191 0.9807111 0.9989271
## 31 0.9898422 0.9807371 0.9989473
## 32 0.9854327 0.9765700 0.9942953
## 33 0.9897959 0.9813580 0.9982339
## 34 0.9898191 0.9807111 0.9989271
## 35 0.9898422 0.9807371 0.9989473
## 36 0.9854327 0.9765700 0.9942953
## 37 0.9897959 0.9813580 0.9982339
## 38 0.9898191 0.9807111 0.9989271
## 39 0.9898422 0.9807371 0.9989473
## 40 0.9554301 0.9422194 0.9686409
## 41 0.9891697 0.9779492 1.0000000
## 42 0.9892989 0.9780623 1.0000000
## 43 0.9894266 0.9781747 1.0000000
## 44 0.9554301 0.9422194 0.9686409
## 45 0.9891697 0.9779492 1.0000000
## 46 0.9892989 0.9780623 1.0000000
## 47 0.9894266 0.9781747 1.0000000
## 48 0.9554301 0.9422194 0.9686409
## 49 0.9891697 0.9779492 1.0000000
## 50 0.9892989 0.9780623 1.0000000
## 51 0.9894266 0.9781747 1.0000000
## 52 0.9855357 0.9768510 0.9942205
## 53 0.9935345 0.9880962 0.9989728
## 54 0.9935438 0.9876986 0.9993890
## 55 0.9935531 0.9877131 0.9993930
## 56 0.9855357 0.9768510 0.9942205
## 57 0.9935345 0.9880962 0.9989728
## 58 0.9935438 0.9876986 0.9993890
## 59 0.9935531 0.9877131 0.9993930
## 60 0.9855357 0.9768510 0.9942205
## 61 0.9935345 0.9880962 0.9989728
## 62 0.9935438 0.9876986 0.9993890
## 63 0.9935531 0.9877131 0.9993930
## 64 0.9721341 0.9639884 0.9802798
## 65 0.9908537 0.9804483 1.0000000
## 66 0.9909460 0.9803795 1.0000000
## 67 0.9910373 0.9804677 1.0000000
## 68 0.9721341 0.9639884 0.9802798
## 69 0.9908537 0.9804483 1.0000000
## 70 0.9909460 0.9803795 1.0000000
## 71 0.9910373 0.9804677 1.0000000
## 72 0.9721341 0.9639884 0.9802798
## 73 0.9908537 0.9804483 1.0000000
## 74 0.9909460 0.9803795 1.0000000
## 75 0.9910373 0.9804677 1.0000000
## 76 0.9827498 0.9783242 0.9871754
## 77 0.9976636 0.9936639 1.0000000
## 78 0.9976852 0.9936893 1.0000000
## 79 0.9977067 0.9937145 1.0000000
## 80 0.9827498 0.9783242 0.9871754
## 81 0.9976636 0.9936639 1.0000000
## 82 0.9976852 0.9936893 1.0000000
## 83 0.9977067 0.9937145 1.0000000
## 84 0.9827498 0.9783242 0.9871754
## 85 0.9976636 0.9936639 1.0000000
## 86 0.9976852 0.9936893 1.0000000
## 87 0.9977067 0.9937145 1.0000000
## 88 0.9512195 0.9169511 0.9854879
## 89 0.9526800 0.9183455 0.9870145
## 90 0.9540968 0.9196922 0.9885014
## 91 0.9896492 0.9552209 1.0000000
## 92 0.9512195 0.9169511 0.9854879
## 93 0.9526800 0.9183455 0.9870145
## 94 0.9540968 0.9196922 0.9885014
## 95 0.9896492 0.9552209 1.0000000
## 96 0.9512195 0.9169511 0.9854879
## 97 0.9526800 0.9183455 0.9870145
## 98 0.9540968 0.9196922 0.9885014
## 99 0.9896492 0.9552209 1.0000000
## 100 0.9853580 0.9767609 0.9939552
## 101 0.9920000 0.9840663 0.9999337
## 102 0.9920320 0.9834940 1.0000000
## 103 0.9920639 0.9835538 1.0000000
## 104 0.9853580 0.9767609 0.9939552
## 105 0.9920000 0.9840663 0.9999337
## 106 0.9920320 0.9834940 1.0000000
## 107 0.9920639 0.9835538 1.0000000
## 108 0.9853580 0.9767609 0.9939552
## 109 0.9920000 0.9840663 0.9999337
## 110 0.9920320 0.9834940 1.0000000
## 111 0.9920639 0.9835538 1.0000000
## 112 0.9975639 0.9876663 1.0000000
## 113 1.0000000 0.9889203 1.0000000
## 114 1.0000000 0.9887954 1.0000000
## 115 1.0000000 0.9889015 1.0000000
## 116 0.9975639 0.9876663 1.0000000
## 117 1.0000000 0.9889203 1.0000000
## 118 1.0000000 0.9887954 1.0000000
## 119 1.0000000 0.9889015 1.0000000
## 120 0.9975639 0.9876663 1.0000000
## 121 1.0000000 0.9889203 1.0000000
## 122 1.0000000 0.9887954 1.0000000
## 123 1.0000000 0.9889015 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL
## 1 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.494862
## 2 Quadrat.1 0.9925382 132 Observed 1 4.909318 4.053822
## 3 Quadrat.1 0.9925382 132 Observed 2 3.293762 2.546189
## 4 Quadrat.2 0.9879180 132 Rarefaction 0 12.857628 11.942798
## 5 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.665121
## 6 Quadrat.2 0.9879180 132 Rarefaction 1 9.459158 8.954808
## 7 Quadrat.2 1.0000000 444 Observed 1 9.824330 9.304454
## 8 Quadrat.2 0.9879180 132 Rarefaction 2 8.033307 7.502999
## 9 Quadrat.2 1.0000000 444 Observed 2 8.348268 7.769286
## 10 Quadrat.3 0.9843032 132 Rarefaction 0 10.197489 7.535066
## 11 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 9.480468
## 12 Quadrat.3 0.9888018 446 Observed 0 14.000000 9.494062
## 13 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 9.497471
## 14 Quadrat.3 0.9843032 132 Rarefaction 1 5.617833 5.108611
## 15 Quadrat.3 0.9887892 444 Rarefaction 1 5.826806 5.280630
## 16 Quadrat.3 0.9888018 446 Observed 1 5.827336 5.281069
## 17 Quadrat.3 0.9888144 447 Extrapolation 1 5.827603 5.281242
## 18 Quadrat.3 0.9843032 132 Rarefaction 2 4.394210 4.035749
## 19 Quadrat.3 0.9887892 444 Rarefaction 2 4.475700 4.103205
## 20 Quadrat.3 0.9888018 446 Observed 2 4.475856 4.103310
## 21 Quadrat.3 0.9888144 447 Extrapolation 2 4.475934 4.103363
## 22 Quadrat.4 0.9854327 132 Rarefaction 0 10.032058 6.457513
## 23 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 6.773049
## 24 Quadrat.4 0.9898191 294 Observed 0 12.000000 6.781388
## 25 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 6.784844
## 26 Quadrat.4 0.9854327 132 Rarefaction 1 6.166823 5.480603
## 27 Quadrat.4 0.9897959 292 Rarefaction 1 6.329838 5.633728
## 28 Quadrat.4 0.9898191 294 Observed 1 6.330739 5.634505
## 29 Quadrat.4 0.9898422 295 Extrapolation 1 6.331265 5.635039
## 30 Quadrat.4 0.9854327 132 Rarefaction 2 4.688936 4.074825
## 31 Quadrat.4 0.9897959 292 Rarefaction 2 4.762483 4.137387
## 32 Quadrat.4 0.9898191 294 Observed 2 4.762839 4.137666
## 33 Quadrat.4 0.9898422 295 Extrapolation 2 4.763046 4.137821
## 34 Quadrat.5 0.9554301 132 Rarefaction 0 15.397332 12.165160
## 35 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 12.654910
## 36 Quadrat.5 0.9892989 277 Observed 0 19.000000 12.648480
## 37 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 12.633689
## 38 Quadrat.5 0.9554301 132 Rarefaction 1 4.853180 4.086602
## 39 Quadrat.5 0.9891697 275 Rarefaction 1 5.075318 4.257287
## 40 Quadrat.5 0.9892989 277 Observed 1 5.076505 4.257920
## 41 Quadrat.5 0.9894266 278 Extrapolation 1 5.077264 4.258231
## 42 Quadrat.5 0.9554301 132 Rarefaction 2 2.736650 2.359655
## 43 Quadrat.5 0.9891697 275 Rarefaction 2 2.755674 2.370244
## 44 Quadrat.5 0.9892989 277 Observed 2 2.755773 2.370260
## 45 Quadrat.5 0.9894266 278 Extrapolation 2 2.755837 2.370256
## 46 Quadrat.6 0.9855357 132 Rarefaction 0 6.909497 3.646153
## 47 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 4.354557
## 48 Quadrat.6 0.9935438 464 Observed 0 10.000000 4.360899
## 49 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 4.364296
## 50 Quadrat.6 0.9855357 132 Rarefaction 1 4.179489 3.717591
## 51 Quadrat.6 0.9935345 462 Rarefaction 1 4.290353 3.874390
## 52 Quadrat.6 0.9935438 464 Observed 1 4.290540 3.874607
## 53 Quadrat.6 0.9935531 465 Extrapolation 1 4.290664 3.874723
## 54 Quadrat.6 0.9855357 132 Rarefaction 2 3.634645 3.310332
## 55 Quadrat.6 0.9935345 462 Rarefaction 2 3.687642 3.407236
## 56 Quadrat.6 0.9935438 464 Observed 2 3.687712 3.407333
## 57 Quadrat.6 0.9935531 465 Extrapolation 2 3.687758 3.407386
## 58 Quadrat.7 0.9721341 132 Rarefaction 0 11.415039 9.258961
## 59 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 5.946694
## 60 Quadrat.7 0.9909460 328 Observed 0 15.000000 5.920727
## 61 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 5.891843
## 62 Quadrat.7 0.9721341 132 Rarefaction 1 6.178858 5.565777
## 63 Quadrat.7 0.9908537 327 Rarefaction 1 6.414677 5.789798
## 64 Quadrat.7 0.9909460 328 Observed 1 6.415378 5.790580
## 65 Quadrat.7 0.9910373 329 Extrapolation 1 6.415922 5.791180
## 66 Quadrat.7 0.9721341 132 Rarefaction 2 4.713915 4.180896
## 67 Quadrat.7 0.9908537 327 Rarefaction 2 4.794932 4.233696
## 68 Quadrat.7 0.9909460 328 Observed 2 4.795151 4.233897
## 69 Quadrat.7 0.9910373 329 Extrapolation 2 4.795320 4.234048
## 70 Quadrat.8 0.9827498 132 Rarefaction 0 11.777809 10.511050
## 71 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 10.756846
## 72 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.754219
## 73 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 10.750368
## 74 Quadrat.8 0.9827498 132 Rarefaction 1 6.011288 5.254900
## 75 Quadrat.8 0.9976636 427 Rarefaction 1 6.244048 5.436451
## 76 Quadrat.8 0.9976852 428 Observed 1 6.244415 5.436718
## 77 Quadrat.8 0.9977067 429 Extrapolation 1 6.244668 5.436902
## 78 Quadrat.8 0.9827498 132 Rarefaction 2 4.275118 3.695621
## 79 Quadrat.8 0.9976636 427 Rarefaction 2 4.350221 3.740286
## 80 Quadrat.8 0.9976852 428 Observed 2 4.350337 3.740363
## 81 Quadrat.8 0.9977067 429 Extrapolation 2 4.350417 3.740414
## 82 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.811821
## 83 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.787799
## 84 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 10.717963
## 85 Quadrat.9 0.9896492 132 Extrapolation 0 17.234773 8.366420
## 86 Quadrat.9 0.9512195 80 Rarefaction 1 8.427859 6.582197
## 87 Quadrat.9 0.9526800 82 Observed 1 8.450869 6.597566
## 88 Quadrat.9 0.9540968 83 Extrapolation 1 8.463836 6.601186
## 89 Quadrat.9 0.9896492 132 Extrapolation 1 8.932639 6.853697
## 90 Quadrat.9 0.9512195 80 Rarefaction 2 5.469031 4.123833
## 91 Quadrat.9 0.9526800 82 Observed 2 5.475570 4.125773
## 92 Quadrat.9 0.9540968 83 Extrapolation 2 5.479218 4.124598
## 93 Quadrat.9 0.9896492 132 Extrapolation 2 5.592621 4.135452
## 94 Quadrat.10 0.9853580 132 Rarefaction 0 8.766625 6.274553
## 95 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.707618
## 96 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.718151
## 97 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.722967
## 98 Quadrat.10 0.9853580 132 Rarefaction 1 4.289710 3.734222
## 99 Quadrat.10 0.9920000 248 Rarefaction 1 4.372453 3.806640
## 100 Quadrat.10 0.9920320 250 Observed 1 4.373262 3.807331
## 101 Quadrat.10 0.9920639 251 Extrapolation 1 4.373664 3.807701
## 102 Quadrat.10 0.9853580 132 Rarefaction 2 3.406166 3.030573
## 103 Quadrat.10 0.9920000 248 Rarefaction 2 3.435684 3.055177
## 104 Quadrat.10 0.9920320 250 Observed 2 3.435954 3.055404
## 105 Quadrat.10 0.9920639 251 Extrapolation 2 3.436088 3.055521
## 106 Quadrat.11 0.9975639 132 Rarefaction 0 12.974684 11.335537
## 107 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.168154
## 108 Quadrat.11 0.9975639 132 Rarefaction 1 8.616984 7.674816
## 109 Quadrat.11 1.0000000 155 Observed 1 8.680817 7.750206
## 110 Quadrat.11 0.9975639 132 Rarefaction 2 6.560505 5.592670
## 111 Quadrat.11 1.0000000 155 Observed 2 6.602088 5.612058
## qD.UCL
## 1 13.505138
## 2 5.764814
## 3 4.041335
## 4 13.772457
## 5 15.334879
## 6 9.963509
## 7 10.344207
## 8 8.563616
## 9 8.927250
## 10 12.859913
## 11 18.475184
## 12 18.505938
## 13 18.524926
## 14 6.127055
## 15 6.372983
## 16 6.373603
## 17 6.373964
## 18 4.752671
## 19 4.848196
## 20 4.848402
## 21 4.848506
## 22 13.606603
## 23 17.192205
## 24 17.218612
## 25 17.235518
## 26 6.853043
## 27 7.025949
## 28 7.026972
## 29 7.027492
## 30 5.303046
## 31 5.387579
## 32 5.388012
## 33 5.388272
## 34 18.629504
## 35 25.311236
## 36 25.351520
## 37 25.387714
## 38 5.619758
## 39 5.893348
## 40 5.895091
## 41 5.896296
## 42 3.113645
## 43 3.141104
## 44 3.141287
## 45 3.141417
## 46 10.172841
## 47 15.625932
## 48 15.639101
## 49 15.648617
## 50 4.641387
## 51 4.706316
## 52 4.706473
## 53 4.706605
## 54 3.958957
## 55 3.968048
## 56 3.968091
## 57 3.968130
## 58 13.571116
## 59 24.029761
## 60 24.079273
## 61 24.126265
## 62 6.791940
## 63 7.039556
## 64 7.040177
## 65 7.040664
## 66 5.246935
## 67 5.356168
## 68 5.356404
## 69 5.356591
## 70 13.044569
## 71 17.236358
## 72 17.245781
## 73 17.254261
## 74 6.767677
## 75 7.051644
## 76 7.052113
## 77 7.052434
## 78 4.854615
## 79 4.960156
## 80 4.960311
## 81 4.960419
## 82 21.016749
## 83 21.212201
## 84 21.376677
## 85 26.103125
## 86 10.273520
## 87 10.304172
## 88 10.326485
## 89 11.011582
## 90 6.814229
## 91 6.825367
## 92 6.833837
## 93 7.049790
## 94 11.258697
## 95 13.260423
## 96 13.281849
## 97 13.292969
## 98 4.845198
## 99 4.938267
## 100 4.939193
## 101 4.939626
## 102 3.781758
## 103 3.816190
## 104 3.816504
## 105 3.816655
## 106 14.613831
## 107 14.831846
## 108 9.559152
## 109 9.611428
## 110 7.528340
## 111 7.592119
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.0558598 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4668383 4.187205
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3977532 2.572880
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.6039041 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2960225 3.898349
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1924747 3.092656
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.9378472 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5850427 7.888081
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6279722 5.620517
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5391324 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3254593 9.334145
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3501623 7.802775
## 13 Quadrat.3 Species richness 14.000000 23.977578 7.7228815 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.3133341 5.366041
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2085841 4.102275
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.3582615 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3441985 5.833668
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3268264 4.184233
## 19 Quadrat.5 Species richness 19.000000 19.896751 3.5874740 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4398265 4.407198
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2321950 2.318323
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.7248291 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1687788 4.026268
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1173906 3.479163
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.0814672 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3305830 5.929446
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.2841119 4.294607
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.8828548 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3576478 5.645641
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2531719 3.888533
## 31 Quadrat.9 Species richness 16.000000 17.580488 6.3181362 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.0658111 7.380193
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8307439 4.167583
## UCL
## 1 14.525623
## 2 6.017177
## 3 4.132044
## 4 17.095558
## 5 5.058736
## 6 3.847143
## 7 14.838147
## 8 10.181407
## 9 8.082123
## 10 15.056680
## 11 10.609922
## 12 9.175386
## 13 39.114148
## 14 6.594288
## 15 4.919909
## 16 25.026729
## 17 7.182901
## 18 5.465369
## 19 26.928071
## 20 6.131286
## 21 3.228510
## 22 23.750797
## 23 4.687869
## 24 3.939325
## 25 23.896785
## 26 7.225307
## 27 5.408306
## 28 17.939743
## 29 7.047594
## 30 4.880949
## 31 29.963807
## 32 11.558096
## 33 7.424040
n <- c(444)
Barrow_Datan <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = n)
Barrow_Datan
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.462192 11.52266 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.464362 11.53564 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.466425 11.54850 0.9926504
## 4 Quadrat.1 444 Extrapolation 0 10.491821 8.120280 12.86336 0.9999340
## 5 Quadrat.2 444 Observed 0 14.000000 13.045550 14.95445 1.0000000
## 6 Quadrat.3 444 Rarefaction 0 13.977578 10.930789 17.02437 0.9887892
## 7 Quadrat.3 445 Rarefaction 0 13.988789 10.936407 17.04117 0.9887892
## 8 Quadrat.3 446 Observed 0 14.000000 10.942025 17.05797 0.9888018
## 9 Quadrat.3 447 Extrapolation 0 14.011198 10.947270 17.07513 0.9888144
## 10 Quadrat.4 293 Rarefaction 0 11.989796 9.080303 14.89929 0.9897959
## 11 Quadrat.4 294 Observed 0 12.000000 9.082405 14.91759 0.9898191
## 12 Quadrat.4 295 Extrapolation 0 12.010181 9.083561 14.93680 0.9898422
## 13 Quadrat.4 444 Extrapolation 0 13.295523 9.074805 17.51624 0.9927601
## 14 Quadrat.5 276 Rarefaction 0 18.989170 16.453326 21.52501 0.9891697
## 15 Quadrat.5 277 Observed 0 19.000000 16.461757 21.53824 0.9892989
## 16 Quadrat.5 278 Extrapolation 0 19.010701 16.470063 21.55134 0.9894266
## 17 Quadrat.5 444 Extrapolation 0 19.775973 16.654197 22.89775 0.9985587
## 18 Quadrat.6 444 Rarefaction 0 9.868852 7.778443 11.95926 0.9933473
## 19 Quadrat.6 463 Rarefaction 0 9.993534 7.828657 12.15841 0.9935345
## 20 Quadrat.6 464 Observed 0 10.000000 7.831169 12.16883 0.9935438
## 21 Quadrat.6 465 Extrapolation 0 10.006456 7.833670 12.17924 0.9935531
## 22 Quadrat.7 327 Rarefaction 0 14.990854 12.208332 17.77338 0.9908537
## 23 Quadrat.7 328 Observed 0 15.000000 12.212398 17.78760 0.9909460
## 24 Quadrat.7 329 Extrapolation 0 15.009054 12.216376 17.80173 0.9910373
## 25 Quadrat.7 444 Extrapolation 0 15.620576 12.240047 19.00111 0.9972081
## 26 Quadrat.8 427 Rarefaction 0 13.997664 12.517201 15.47813 0.9976636
## 27 Quadrat.8 428 Observed 0 14.000000 12.518406 15.48159 0.9976852
## 28 Quadrat.8 429 Extrapolation 0 14.002315 12.519384 15.48525 0.9977067
## 29 Quadrat.8 444 Extrapolation 0 14.034567 12.530673 15.53846 0.9980060
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.615849 18.28659 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.649377 18.35062 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.681158 18.41348 0.9540968
## 33 Quadrat.9 444 Extrapolation 0 17.580462 10.029930 25.13099 0.9999992
## 34 Quadrat.10 249 Rarefaction 0 9.992000 8.132473 11.85153 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 8.135983 11.86402 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 8.138555 11.87738 0.9920639
## 37 Quadrat.10 444 Extrapolation 0 11.076621 8.272364 13.88088 0.9963385
## 38 Quadrat.11 154 Rarefaction 0 13.000000 12.209408 13.79059 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 12.208055 13.79195 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 12.205738 13.79426 1.0000000
## 41 Quadrat.11 444 Extrapolation 0 13.000000 11.463606 14.53639 1.0000000
## SC.LCL SC.UCL
## 1 0.9784052 1.0000000
## 2 0.9786607 1.0000000
## 3 0.9789115 1.0000000
## 4 0.9988438 1.0000000
## 5 0.9981470 1.0000000
## 6 0.9822047 0.9953738
## 7 0.9822025 0.9953760
## 8 0.9818928 0.9957108
## 9 0.9819055 0.9957232
## 10 0.9799676 0.9996242
## 11 0.9792335 1.0000000
## 12 0.9792667 1.0000000
## 13 0.9838088 1.0000000
## 14 0.9796648 0.9986745
## 15 0.9797646 0.9988333
## 16 0.9798632 0.9989900
## 17 0.9886435 1.0000000
## 18 0.9877400 0.9989545
## 19 0.9878423 0.9992267
## 20 0.9878525 0.9992350
## 21 0.9878628 0.9992434
## 22 0.9819791 0.9997283
## 23 0.9820706 0.9998213
## 24 0.9821613 0.9999133
## 25 0.9887347 1.0000000
## 26 0.9931987 1.0000000
## 27 0.9931002 1.0000000
## 28 0.9931336 1.0000000
## 29 0.9936038 1.0000000
## 30 0.9167340 0.9857050
## 31 0.9179219 0.9874381
## 32 0.9190891 0.9891045
## 33 0.9927807 1.0000000
## 34 0.9839097 1.0000000
## 35 0.9830774 1.0000000
## 36 0.9831435 1.0000000
## 37 0.9916745 1.0000000
## 38 0.9908281 1.0000000
## 39 0.9908066 1.0000000
## 40 0.9908961 1.0000000
## 41 0.9982449 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 7.878237 12.09383
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.889428 12.11057
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 7.891984 12.12294
## 4 Quadrat.1 0.9999340 444 Extrapolation 0 10.491821 8.033400 12.95024
## 5 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.967725 15.03227
## 6 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 8.037733 19.91792
## 7 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.048366 19.95163
## 8 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 8.050096 19.97230
## 9 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 5.473557 18.49170
## 10 Quadrat.4 0.9898191 294 Observed 0 12.000000 5.482565 18.51744
## 11 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 5.487510 18.53285
## 12 Quadrat.4 0.9927601 444 Extrapolation 0 13.295523 5.662647 20.92840
## 13 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 14.108438 23.85771
## 14 Quadrat.5 0.9892989 277 Observed 0 19.000000 14.090577 23.90942
## 15 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 14.064769 23.95663
## 16 Quadrat.5 0.9985587 444 Extrapolation 0 19.775973 11.804434 27.74751
## 17 Quadrat.6 0.9933473 444 Rarefaction 0 9.868852 4.994111 14.74359
## 18 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 5.100190 14.88030
## 19 Quadrat.6 0.9935438 464 Observed 0 10.000000 5.106674 14.89333
## 20 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 5.111117 14.90180
## 21 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 9.805167 20.17129
## 22 Quadrat.7 0.9909460 328 Observed 0 15.000000 9.788049 20.21195
## 23 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 9.768756 20.24935
## 24 Quadrat.7 0.9972081 444 Extrapolation 0 15.620576 8.202072 23.03908
## 25 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.634223 16.35898
## 26 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.633483 16.36652
## 27 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.631445 16.37318
## 28 Quadrat.8 0.9980060 444 Extrapolation 0 14.034567 11.601417 16.46772
## 29 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.984200 20.84437
## 30 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.977373 21.02263
## 31 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 10.926888 21.16775
## 32 Quadrat.9 0.9999992 444 Extrapolation 0 17.580462 8.667408 26.49351
## 33 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 7.248575 12.71947
## 34 Quadrat.10 0.9920320 250 Observed 0 10.000000 7.259720 12.74028
## 35 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 7.263111 12.75283
## 36 Quadrat.10 0.9963385 444 Extrapolation 0 11.076621 7.695247 14.45799
## 37 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.164605 14.83539
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.9505486 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4931145 4.135704
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4109805 2.546955
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.6548871 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2697741 3.949795
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1839675 3.109330
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.8461944 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5784235 7.901055
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6249436 5.626453
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6338259 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3352138 9.315027
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3759566 7.752219
## 13 Quadrat.3 Species richness 14.000000 23.977578 5.2095044 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.3242031 5.344738
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2285097 4.063221
## 16 Quadrat.4 Species richness 12.000000 16.484694 3.8729081 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3478543 5.826503
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3352102 4.167801
## 19 Quadrat.5 Species richness 19.000000 19.896751 3.9641951 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.5200404 4.249981
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2730885 2.238173
## 22 Quadrat.6 Species richness 10.000000 14.490302 5.8931711 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1734094 4.017192
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1249835 3.464281
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.0691170 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3883161 5.816291
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3315168 4.201695
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.6406342 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3779586 5.605832
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2743261 3.847072
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.2211148 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1694153 7.177132
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8690849 4.092436
## UCL
## 1 14.319217
## 2 6.068678
## 3 4.157969
## 4 17.195483
## 5 5.007290
## 6 3.830469
## 7 14.658511
## 8 10.168433
## 9 8.076187
## 10 15.242276
## 11 10.629041
## 12 9.225942
## 13 34.188019
## 14 6.615591
## 15 4.958963
## 16 24.075454
## 17 7.190066
## 18 5.481801
## 19 27.666430
## 20 6.288502
## 21 3.308660
## 22 26.040705
## 23 4.696944
## 24 3.954207
## 25 23.872579
## 26 7.338462
## 27 5.501218
## 28 17.465000
## 29 7.087403
## 30 4.922410
## 31 27.813685
## 32 11.761156
## 33 7.499187
o <- c(446)
Barrow_Datao <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = o)
Barrow_Datao
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.259066 11.72578 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.262678 11.73732 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.264854 11.75007 0.9926504
## 4 Quadrat.1 446 Extrapolation 0 10.491952 7.031508 13.95240 0.9999359
## 5 Quadrat.2 443 Rarefaction 0 14.000000 13.173573 14.82643 1.0000000
## 6 Quadrat.2 444 Observed 0 14.000000 13.173185 14.82681 1.0000000
## 7 Quadrat.2 445 Extrapolation 0 14.000000 13.173129 14.82687 1.0000000
## 8 Quadrat.2 446 Extrapolation 0 14.000000 13.173063 14.82694 1.0000000
## 9 Quadrat.3 446 Observed 0 14.000000 10.951012 17.04899 0.9888018
## 10 Quadrat.4 293 Rarefaction 0 11.989796 9.247733 14.73186 0.9897959
## 11 Quadrat.4 294 Observed 0 12.000000 9.250627 14.74937 0.9898191
## 12 Quadrat.4 295 Extrapolation 0 12.010181 9.252708 14.76765 0.9898422
## 13 Quadrat.4 446 Extrapolation 0 13.309986 9.387136 17.23284 0.9927929
## 14 Quadrat.5 276 Rarefaction 0 18.989170 16.480133 21.49821 0.9891697
## 15 Quadrat.5 277 Observed 0 19.000000 16.488148 21.51185 0.9892989
## 16 Quadrat.5 278 Extrapolation 0 19.010701 16.496002 21.52540 0.9894266
## 17 Quadrat.5 446 Extrapolation 0 19.778838 16.369349 23.18833 0.9985929
## 18 Quadrat.6 446 Rarefaction 0 9.882147 7.108750 12.65554 0.9933680
## 19 Quadrat.6 463 Rarefaction 0 9.993534 7.142712 12.84436 0.9935345
## 20 Quadrat.6 464 Observed 0 10.000000 7.144602 12.85540 0.9935438
## 21 Quadrat.6 465 Extrapolation 0 10.006456 7.146148 12.86676 0.9935531
## 22 Quadrat.7 327 Rarefaction 0 14.990854 12.276862 17.70485 0.9908537
## 23 Quadrat.7 328 Observed 0 15.000000 12.280732 17.71927 0.9909460
## 24 Quadrat.7 329 Extrapolation 0 15.009054 12.284195 17.73391 0.9910373
## 25 Quadrat.7 446 Extrapolation 0 15.626132 12.240115 19.01215 0.9972641
## 26 Quadrat.8 427 Rarefaction 0 13.997664 12.201693 15.79363 0.9976636
## 27 Quadrat.8 428 Observed 0 14.000000 12.202355 15.79765 0.9976852
## 28 Quadrat.8 429 Extrapolation 0 14.002315 12.202690 15.80194 0.9977067
## 29 Quadrat.8 446 Extrapolation 0 14.038536 12.205148 15.87192 0.9980429
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.152724 18.74971 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.176630 18.82337 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.199131 18.89551 0.9540968
## 33 Quadrat.9 446 Extrapolation 0 17.580463 10.353966 24.80696 0.9999993
## 34 Quadrat.10 249 Rarefaction 0 9.992000 8.186928 11.79707 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 8.190185 11.80982 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 8.192176 11.82376 0.9920639
## 37 Quadrat.10 446 Extrapolation 0 11.083929 8.186542 13.98132 0.9963677
## 38 Quadrat.11 154 Rarefaction 0 13.000000 11.830171 14.16983 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 11.828028 14.17197 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 11.823801 14.17620 1.0000000
## 41 Quadrat.11 446 Extrapolation 0 13.000000 11.145184 14.85482 1.0000000
## SC.LCL SC.UCL
## 1 0.9763369 1.0000000
## 2 0.9756721 1.0000000
## 3 0.9758954 1.0000000
## 4 0.9964256 1.0000000
## 5 0.9970100 1.0000000
## 6 0.9971843 1.0000000
## 7 0.9971944 1.0000000
## 8 0.9972044 1.0000000
## 9 0.9817683 0.9958353
## 10 0.9808407 0.9987512
## 11 0.9800977 0.9995405
## 12 0.9801313 0.9995531
## 13 0.9847867 1.0000000
## 14 0.9777336 1.0000000
## 15 0.9778391 1.0000000
## 16 0.9779436 1.0000000
## 17 0.9880954 1.0000000
## 18 0.9869958 0.9997402
## 19 0.9870712 0.9999977
## 20 0.9868260 1.0000000
## 21 0.9868370 1.0000000
## 22 0.9822357 0.9994716
## 23 0.9821250 0.9997669
## 24 0.9822184 0.9998563
## 25 0.9893267 1.0000000
## 26 0.9934078 1.0000000
## 27 0.9931699 1.0000000
## 28 0.9931980 1.0000000
## 29 0.9936409 1.0000000
## 30 0.9087112 0.9937278
## 31 0.9103078 0.9950522
## 32 0.9118590 0.9963345
## 33 0.9950194 1.0000000
## 34 0.9839923 1.0000000
## 35 0.9831483 1.0000000
## 36 0.9832015 1.0000000
## 37 0.9907884 1.0000000
## 38 0.9910441 1.0000000
## 39 0.9906779 1.0000000
## 40 0.9907780 1.0000000
## 41 0.9983360 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 6.541212 13.43086
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.545477 13.45452
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 6.543486 13.47144
## 4 Quadrat.1 0.9999359 446 Extrapolation 0 10.491952 6.349864 14.63404
## 5 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.726331 15.27367
## 6 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.129881 19.87012
## 7 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 6.816726 17.14853
## 8 Quadrat.4 0.9898191 294 Observed 0 12.000000 6.826324 17.17368
## 9 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 6.830164 17.19020
## 10 Quadrat.4 0.9927929 446 Extrapolation 0 13.309986 7.211483 19.40849
## 11 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 13.641243 24.32490
## 12 Quadrat.5 0.9892989 277 Observed 0 19.000000 13.619014 24.38099
## 13 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 13.590321 24.43108
## 14 Quadrat.5 0.9985929 446 Extrapolation 0 19.778838 11.127390 28.43029
## 15 Quadrat.6 0.9933680 446 Rarefaction 0 9.882147 3.269683 16.49461
## 16 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 3.380144 16.60034
## 17 Quadrat.6 0.9935438 464 Observed 0 10.000000 3.388571 16.61143
## 18 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 3.393254 16.61966
## 19 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 9.416644 20.55981
## 20 Quadrat.7 0.9909460 328 Observed 0 15.000000 9.399274 20.60073
## 21 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 9.378952 20.63916
## 22 Quadrat.7 0.9972641 446 Extrapolation 0 15.626132 7.917241 23.33502
## 23 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 10.691021 17.30218
## 24 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.688978 17.31102
## 25 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 10.685370 17.31926
## 26 Quadrat.8 0.9980429 446 Extrapolation 0 14.038536 10.627794 17.44928
## 27 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.513187 21.31538
## 28 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.543409 21.45659
## 29 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 10.531475 21.56316
## 30 Quadrat.9 0.9999993 446 Extrapolation 0 17.580463 9.679520 25.48141
## 31 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.632577 13.33546
## 32 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.642215 13.35778
## 33 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.646539 13.36940
## 34 Quadrat.10 0.9963677 446 Extrapolation 0 11.083929 6.997490 15.17037
## 35 Quadrat.11 1.0000000 155 Observed 0 13.000000 10.903311 15.09669
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.9076631 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5003687 4.121486
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4038867 2.560859
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.8979238 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2622962 3.964452
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1806293 3.115873
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.6862959 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5953066 7.867964
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6556598 5.566251
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5556725 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3182770 9.348222
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3670193 7.769736
## 13 Quadrat.3 Species richness 14.000000 23.977578 4.8531422 14.465595
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2952901 5.401407
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2296259 4.061033
## 16 Quadrat.4 Species richness 12.000000 16.484694 3.9377634 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3818525 5.759867
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3613467 4.116575
## 19 Quadrat.5 Species richness 19.000000 19.896751 5.2029227 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4008832 4.483525
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2019592 2.377584
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.1591244 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1611788 4.041164
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1232947 3.467591
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.6813951 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3655749 5.860863
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3121001 4.239751
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.9184661 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3122403 5.734638
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2424309 3.909585
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.0205779 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.0722751 7.367524
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.7772191 4.272490
## UCL
## 1 14.235163
## 2 6.082896
## 3 4.144066
## 4 17.671826
## 5 4.992634
## 6 3.823927
## 7 14.345115
## 8 10.201523
## 9 8.136390
## 10 15.089098
## 11 10.595845
## 12 9.208425
## 13 33.489562
## 14 6.558923
## 15 4.961150
## 16 24.202568
## 17 7.256702
## 18 5.533028
## 19 30.094292
## 20 6.054958
## 21 3.169249
## 22 22.642036
## 23 4.672973
## 24 3.950897
## 25 23.112658
## 26 7.293890
## 27 5.463162
## 28 18.009540
## 29 6.958597
## 30 4.859897
## 31 27.420640
## 32 11.570765
## 33 7.319133
p <- c(294)
Barrow_Datap <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = p)
Barrow_Datap
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.464005 11.52084 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.465894 11.53411 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.466702 11.54822 0.9926504
## 4 Quadrat.1 294 Extrapolation 0 10.453588 7.955826 12.95135 0.9993590
## 5 Quadrat.2 294 Rarefaction 0 13.842723 13.217198 14.46825 0.9975280
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.313796 14.68620 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.313013 14.68699 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.312580 14.68742 1.0000000
## 9 Quadrat.3 294 Rarefaction 0 12.282806 10.368322 14.19729 0.9884423
## 10 Quadrat.3 445 Rarefaction 0 13.988789 11.131921 16.84566 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 11.136650 16.86335 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 11.141365 16.88103 0.9888144
## 13 Quadrat.4 294 Observed 0 12.000000 9.307387 14.69261 0.9898191
## 14 Quadrat.5 276 Rarefaction 0 18.989170 16.023383 21.95496 0.9891697
## 15 Quadrat.5 277 Observed 0 19.000000 16.030206 21.96979 0.9892989
## 16 Quadrat.5 278 Extrapolation 0 19.010701 16.036893 21.98451 0.9894266
## 17 Quadrat.5 294 Extrapolation 0 19.165546 16.126492 22.20460 0.9912744
## 18 Quadrat.6 294 Rarefaction 0 8.718208 6.350463 11.08595 0.9910892
## 19 Quadrat.6 463 Rarefaction 0 9.993534 6.790718 13.19635 0.9935345
## 20 Quadrat.6 464 Observed 0 10.000000 6.792623 13.20738 0.9935438
## 21 Quadrat.6 465 Extrapolation 0 10.006456 6.794519 13.21839 0.9935531
## 22 Quadrat.7 294 Rarefaction 0 14.636720 12.194914 17.07853 0.9877769
## 23 Quadrat.7 327 Rarefaction 0 14.990854 12.441132 17.54058 0.9908537
## 24 Quadrat.7 328 Observed 0 15.000000 12.447282 17.55272 0.9909460
## 25 Quadrat.7 329 Extrapolation 0 15.009054 12.452838 17.56527 0.9910373
## 26 Quadrat.8 294 Rarefaction 0 13.458543 11.891420 15.02567 0.9939557
## 27 Quadrat.8 427 Rarefaction 0 13.997664 12.365470 15.62986 0.9976636
## 28 Quadrat.8 428 Observed 0 14.000000 12.367363 15.63264 0.9976852
## 29 Quadrat.8 429 Extrapolation 0 14.002315 12.369224 15.63541 0.9977067
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.590898 18.31154 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.624165 18.37584 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.655957 18.43868 0.9540968
## 33 Quadrat.9 294 Extrapolation 0 17.577975 12.527156 22.62880 0.9999248
## 34 Quadrat.10 249 Rarefaction 0 9.992000 7.499855 12.48415 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 7.501605 12.49840 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 7.502252 12.51368 0.9920639
## 37 Quadrat.10 294 Extrapolation 0 10.322062 7.515738 13.12839 0.9933202
## 38 Quadrat.11 154 Rarefaction 0 13.000000 11.967360 14.03264 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 11.966671 14.03333 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 11.965804 14.03420 1.0000000
## 41 Quadrat.11 294 Extrapolation 0 13.000000 11.669409 14.33059 1.0000000
## SC.LCL SC.UCL
## 1 0.9787398 1.0000000
## 2 0.9780467 1.0000000
## 3 0.9782659 1.0000000
## 4 0.9939048 1.0000000
## 5 0.9951501 0.9999058
## 6 0.9974634 1.0000000
## 7 0.9977261 1.0000000
## 8 0.9977363 1.0000000
## 9 0.9814113 0.9954733
## 10 0.9811472 0.9964313
## 11 0.9811605 0.9964431
## 12 0.9811739 0.9964549
## 13 0.9801848 0.9994534
## 14 0.9790575 0.9992818
## 15 0.9791779 0.9994200
## 16 0.9792968 0.9995565
## 17 0.9810281 1.0000000
## 18 0.9846905 0.9974880
## 19 0.9873901 0.9996789
## 20 0.9874018 0.9996857
## 21 0.9874135 0.9996926
## 22 0.9809091 0.9946447
## 23 0.9838548 0.9978525
## 24 0.9835123 0.9983796
## 25 0.9836013 0.9984734
## 26 0.9902001 0.9977113
## 27 0.9932025 1.0000000
## 28 0.9932311 1.0000000
## 29 0.9932594 1.0000000
## 30 0.9181140 0.9843250
## 31 0.9194660 0.9858940
## 32 0.9208008 0.9873928
## 33 0.9913870 1.0000000
## 34 0.9837031 1.0000000
## 35 0.9824008 1.0000000
## 36 0.9824681 1.0000000
## 37 0.9850251 1.0000000
## 38 0.9903564 1.0000000
## 39 0.9904818 1.0000000
## 40 0.9905750 1.0000000
## 41 0.9966582 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 7.360182 12.61189
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.366582 12.63342
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 7.365845 12.64908
## 4 Quadrat.1 0.9993590 294 Extrapolation 0 10.453588 7.261101 13.64608
## 5 Quadrat.2 0.9975280 294 Rarefaction 0 13.842723 13.072702 14.61274
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 13.072990 14.92701
## 7 Quadrat.3 0.9884423 294 Rarefaction 0 12.282806 6.426984 18.13863
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 7.898266 20.05738
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 7.908231 20.09177
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 7.909656 20.11274
## 11 Quadrat.4 0.9898191 294 Observed 0 12.000000 5.654750 18.34525
## 12 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 13.550164 24.41598
## 13 Quadrat.5 0.9892989 277 Observed 0 19.000000 13.537596 24.46240
## 14 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 13.517223 24.50418
## 15 Quadrat.5 0.9912744 294 Extrapolation 0 19.165546 13.201372 25.12972
## 16 Quadrat.6 0.9910892 294 Rarefaction 0 8.718208 2.927276 14.50914
## 17 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 3.238886 16.74160
## 18 Quadrat.6 0.9935438 464 Observed 0 10.000000 3.243934 16.75607
## 19 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 3.254872 16.75804
## 20 Quadrat.7 0.9877769 294 Rarefaction 0 14.636719 11.081321 18.19212
## 21 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 11.010119 18.96634
## 22 Quadrat.7 0.9909460 328 Observed 0 15.000000 11.004038 18.99596
## 23 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 10.995280 19.02283
## 24 Quadrat.8 0.9939557 294 Rarefaction 0 13.458543 11.091572 15.82551
## 25 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 10.931509 17.06169
## 26 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.929353 17.07065
## 27 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 10.925834 17.07880
## 28 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 12.187352 19.64122
## 29 Quadrat.9 0.9526800 82 Observed 0 16.000000 12.222720 19.77728
## 30 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 12.216277 19.87836
## 31 Quadrat.9 0.9999248 294 Extrapolation 0 17.577975 11.589310 23.56664
## 32 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.159273 13.80877
## 33 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.169666 13.83033
## 34 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.171289 13.84465
## 35 Quadrat.10 0.9933202 294 Extrapolation 0 10.322062 6.246743 14.39738
## 36 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.325403 14.67460
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.9574320 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5154355 4.091956
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4203710 2.528550
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.5235149 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2382561 4.011569
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1601391 3.156033
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.6950538 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.6209095 7.817784
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6558182 5.565940
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6701408 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3127419 9.359071
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3556149 7.792088
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.8624885 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2833917 5.424727
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1931672 4.132491
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.8033263 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3695425 5.783995
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3267141 4.184453
## 19 Quadrat.5 Species richness 19.000000 19.896751 5.1731517 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4727149 4.342738
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2478201 2.287698
## 22 Quadrat.6 Species richness 10.000000 14.490302 5.5295084 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1725109 4.018953
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1262383 3.461821
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.8126805 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3432900 5.904540
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3048648 4.253932
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.9730072 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3371715 5.685774
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2467905 3.901040
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.3665914 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1338369 7.246865
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8545564 4.120912
## UCL
## 1 14.332708
## 2 6.112426
## 3 4.176374
## 4 16.937998
## 5 4.945516
## 6 3.783767
## 7 14.362280
## 8 10.251704
## 9 8.136700
## 10 15.313452
## 11 10.584996
## 12 9.186073
## 13 37.427809
## 14 6.535602
## 15 4.889693
## 16 25.899041
## 17 7.232574
## 18 5.465149
## 19 30.035942
## 20 6.195746
## 21 3.259135
## 22 25.327939
## 23 4.695183
## 24 3.956667
## 25 23.369973
## 26 7.250212
## 27 5.448981
## 28 18.116439
## 29 7.007461
## 30 4.868441
## 31 28.098814
## 32 11.691424
## 33 7.470711
q <- c(277)
Barrow_Dataq <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = q)
Barrow_Dataq
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.547030 11.43782 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.548341 11.45166 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.548139 11.46679 0.9926504
## 4 Quadrat.1 277 Extrapolation 0 10.441066 8.086725 12.79541 0.9991707
## 5 Quadrat.2 277 Rarefaction 0 13.796516 12.843725 14.74931 0.9970534
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.027360 14.97264 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.026842 14.97316 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.026723 14.97328 1.0000000
## 9 Quadrat.3 277 Rarefaction 0 12.085167 10.232251 13.93808 0.9883089
## 10 Quadrat.3 445 Rarefaction 0 13.988789 11.297819 16.67976 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 11.303895 16.69610 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 11.309749 16.71265 0.9888144
## 13 Quadrat.4 277 Rarefaction 0 11.823373 9.382254 14.26449 0.9894244
## 14 Quadrat.4 293 Rarefaction 0 11.989796 9.453800 14.52579 0.9897959
## 15 Quadrat.4 294 Observed 0 12.000000 9.458054 14.54195 0.9898191
## 16 Quadrat.4 295 Extrapolation 0 12.010181 9.461358 14.55900 0.9898422
## 17 Quadrat.5 277 Observed 0 19.000000 16.016773 21.98323 0.9892989
## 18 Quadrat.6 277 Rarefaction 0 8.563578 6.168689 10.95847 0.9907356
## 19 Quadrat.6 463 Rarefaction 0 9.993534 6.726436 13.26063 0.9935345
## 20 Quadrat.6 464 Observed 0 10.000000 6.728730 13.27127 0.9935438
## 21 Quadrat.6 465 Extrapolation 0 10.006456 6.731014 13.28190 0.9935531
## 22 Quadrat.7 277 Rarefaction 0 14.414662 12.339872 16.48945 0.9861919
## 23 Quadrat.7 327 Rarefaction 0 14.990854 12.672617 17.30909 0.9908537
## 24 Quadrat.7 328 Observed 0 15.000000 12.676211 17.32379 0.9909460
## 25 Quadrat.7 329 Extrapolation 0 15.009054 12.679452 17.33866 0.9910373
## 26 Quadrat.8 277 Rarefaction 0 13.350121 12.047656 14.65259 0.9933171
## 27 Quadrat.8 427 Rarefaction 0 13.997664 12.353202 15.64213 0.9976636
## 28 Quadrat.8 428 Observed 0 14.000000 12.353497 15.64650 0.9976852
## 29 Quadrat.8 429 Extrapolation 0 14.002315 12.353558 15.65107 0.9977067
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.265254 18.63718 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.298086 18.70191 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.329387 18.76525 0.9540968
## 33 Quadrat.9 277 Extrapolation 0 17.576276 12.202492 22.95006 0.9998739
## 34 Quadrat.10 249 Rarefaction 0 9.992000 7.856855 12.12714 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 7.858817 12.14118 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 7.859790 12.15615 0.9920639
## 37 Quadrat.10 277 Extrapolation 0 10.204313 7.877684 12.53094 0.9928493
## 38 Quadrat.11 154 Rarefaction 0 13.000000 12.241106 13.75889 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 12.239362 13.76064 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 12.237745 13.76225 1.0000000
## 41 Quadrat.11 277 Extrapolation 0 13.000000 12.006807 13.99319 1.0000000
## SC.LCL SC.UCL
## 1 0.9804251 1.0000000
## 2 0.9791489 1.0000000
## 3 0.9793686 1.0000000
## 4 0.9938032 1.0000000
## 5 0.9943109 0.9997958
## 6 0.9971671 1.0000000
## 7 0.9973630 1.0000000
## 8 0.9973730 1.0000000
## 9 0.9826225 0.9939953
## 10 0.9824489 0.9951296
## 11 0.9822815 0.9953221
## 12 0.9822914 0.9953374
## 13 0.9809210 0.9979279
## 14 0.9810674 0.9985245
## 15 0.9803569 0.9992813
## 16 0.9803880 0.9992963
## 17 0.9777563 1.0000000
## 18 0.9844636 0.9970077
## 19 0.9879021 0.9991669
## 20 0.9879101 0.9991775
## 21 0.9879180 0.9991881
## 22 0.9771668 0.9952170
## 23 0.9809396 1.0000000
## 24 0.9808687 1.0000000
## 25 0.9809552 1.0000000
## 26 0.9888594 0.9977749
## 27 0.9936213 1.0000000
## 28 0.9931391 1.0000000
## 29 0.9931694 1.0000000
## 30 0.9167712 0.9856678
## 31 0.9180303 0.9873297
## 32 0.9192684 0.9889251
## 33 0.9894977 1.0000000
## 34 0.9836129 1.0000000
## 35 0.9828399 1.0000000
## 36 0.9829002 1.0000000
## 37 0.9843585 1.0000000
## 38 0.9922345 1.0000000
## 39 0.9924856 1.0000000
## 40 0.9925855 1.0000000
## 41 0.9975657 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 7.478212 12.49386
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.483841 12.51616
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 7.483139 12.53178
## 4 Quadrat.1 0.9991707 277 Extrapolation 0 10.441066 7.389647 13.49248
## 5 Quadrat.2 0.9970534 277 Rarefaction 0 13.796516 12.681885 14.91115
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.630458 15.36954
## 7 Quadrat.3 0.9883089 277 Rarefaction 0 12.085167 6.030500 18.13983
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 7.609365 20.34629
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 7.621646 20.37835
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 7.624899 20.39750
## 11 Quadrat.4 0.9894244 277 Rarefaction 0 11.823373 6.877480 16.76927
## 12 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 7.119050 16.84620
## 13 Quadrat.4 0.9898191 294 Observed 0 12.000000 7.129334 16.87067
## 14 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 7.137536 16.88283
## 15 Quadrat.5 0.9892989 277 Observed 0 19.000000 12.738133 25.26187
## 16 Quadrat.6 0.9907356 277 Rarefaction 0 8.563578 2.630087 14.49707
## 17 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 2.986816 16.99367
## 18 Quadrat.6 0.9935438 464 Observed 0 10.000000 2.992660 17.00734
## 19 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 2.995168 17.01774
## 20 Quadrat.7 0.9861919 277 Rarefaction 0 14.414662 10.022173 18.80715
## 21 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 8.760922 21.21553
## 22 Quadrat.7 0.9909460 328 Observed 0 15.000000 8.734889 21.26511
## 23 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 8.705369 21.31274
## 24 Quadrat.8 0.9933171 277 Rarefaction 0 13.350121 11.186935 15.51331
## 25 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.204261 16.78894
## 26 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.202625 16.79738
## 27 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.199790 16.80484
## 28 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 12.257304 19.57126
## 29 Quadrat.9 0.9526800 82 Observed 0 16.000000 12.296430 19.70357
## 30 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 12.294103 19.80054
## 31 Quadrat.9 0.9998739 277 Extrapolation 0 17.576276 11.113928 24.03862
## 32 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.332451 13.63559
## 33 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.342433 13.65757
## 34 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.345554 13.67038
## 35 Quadrat.10 0.9928493 277 Extrapolation 0 10.204313 6.401310 14.00732
## 36 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.776831 14.22317
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.5002710 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5150376 4.092736
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3958669 2.576577
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.7014470 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2519964 3.984639
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1626620 3.151088
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.7998378 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.6005476 7.857692
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6561530 5.565284
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5223120 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3210162 9.342853
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3515918 7.799973
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.6757011 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2826466 5.426187
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2001010 4.118901
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.3672390 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3874315 5.748933
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3635381 4.112280
## 19 Quadrat.5 Species richness 19.000000 19.896751 6.0500690 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4123487 4.461053
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2312438 2.320187
## 22 Quadrat.6 Species richness 10.000000 14.490302 5.3706963 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1675944 4.028589
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1210360 3.472018
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.3856573 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3608516 5.870120
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3261300 4.212253
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.5160921 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3631556 5.634846
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2801266 3.835703
## 31 Quadrat.9 Species richness 16.000000 17.580488 4.2609036 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.0283780 7.453561
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.7188233 4.386944
## UCL
## 1 15.396653
## 2 6.111646
## 3 4.128347
## 4 17.286739
## 5 4.972446
## 6 3.788711
## 7 14.567653
## 8 10.211795
## 9 8.137357
## 10 15.023713
## 11 10.601214
## 12 9.178188
## 13 37.061712
## 14 6.534142
## 15 4.903283
## 16 25.044325
## 17 7.267636
## 18 5.537323
## 19 31.754668
## 20 6.077430
## 21 3.226646
## 22 25.016673
## 23 4.685547
## 24 3.946470
## 25 22.533022
## 26 7.284632
## 27 5.490660
## 28 19.180866
## 29 7.058389
## 30 4.933779
## 31 25.931705
## 32 11.484728
## 33 7.204679
r <- c(464)
Barrow_Datar <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = r)
Barrow_Datar
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.649866 11.33498 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.653693 11.34631 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.657148 11.35778 0.9926504
## 4 Quadrat.1 464 Extrapolation 0 10.492969 8.039891 12.94605 0.9999512
## 5 Quadrat.2 443 Rarefaction 0 14.000000 13.181267 14.81873 1.0000000
## 6 Quadrat.2 444 Observed 0 14.000000 13.179849 14.82015 1.0000000
## 7 Quadrat.2 445 Extrapolation 0 14.000000 13.179045 14.82096 1.0000000
## 8 Quadrat.2 464 Extrapolation 0 14.000000 13.163258 14.83674 1.0000000
## 9 Quadrat.3 445 Rarefaction 0 13.988789 11.325138 16.65244 0.9887892
## 10 Quadrat.3 446 Observed 0 14.000000 11.331662 16.66834 0.9888018
## 11 Quadrat.3 447 Extrapolation 0 14.011198 11.338044 16.68435 0.9888144
## 12 Quadrat.3 464 Extrapolation 0 14.199656 11.444208 16.95510 0.9890259
## 13 Quadrat.4 293 Rarefaction 0 11.989796 9.402168 14.57742 0.9897959
## 14 Quadrat.4 294 Observed 0 12.000000 9.406758 14.59324 0.9898191
## 15 Quadrat.4 295 Extrapolation 0 12.010181 9.410833 14.60953 0.9898422
## 16 Quadrat.4 464 Extrapolation 0 13.437240 9.834309 17.04017 0.9930818
## 17 Quadrat.5 276 Rarefaction 0 18.989170 16.231157 21.74718 0.9891697
## 18 Quadrat.5 277 Observed 0 19.000000 16.236974 21.76303 0.9892989
## 19 Quadrat.5 278 Extrapolation 0 19.010701 16.242525 21.77888 0.9894266
## 20 Quadrat.5 464 Extrapolation 0 19.801753 15.889221 23.71428 0.9988664
## 21 Quadrat.6 464 Observed 0 10.000000 7.861748 12.13825 0.9935438
## 22 Quadrat.7 327 Rarefaction 0 14.990854 12.760348 17.22136 0.9908537
## 23 Quadrat.7 328 Observed 0 15.000000 12.766701 17.23330 0.9909460
## 24 Quadrat.7 329 Extrapolation 0 15.009054 12.772576 17.24553 0.9910373
## 25 Quadrat.7 464 Extrapolation 0 15.671373 12.919956 18.42279 0.9977207
## 26 Quadrat.8 427 Rarefaction 0 13.997664 12.140570 15.85476 0.9976636
## 27 Quadrat.8 428 Observed 0 14.000000 12.141037 15.85896 0.9976852
## 28 Quadrat.8 429 Extrapolation 0 14.002315 12.141100 15.86353 0.9977067
## 29 Quadrat.8 464 Extrapolation 0 14.071118 12.131471 16.01077 0.9983453
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.291557 18.61088 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.314092 18.68591 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.335134 18.75951 0.9540968
## 33 Quadrat.9 464 Extrapolation 0 17.580473 9.232619 25.92833 0.9999996
## 34 Quadrat.10 249 Rarefaction 0 9.992000 8.290606 11.69339 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 8.294098 11.70590 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 8.297537 11.71840 0.9920639
## 37 Quadrat.10 464 Extrapolation 0 11.147134 8.401703 13.89257 0.9966205
## 38 Quadrat.11 154 Rarefaction 0 13.000000 12.092866 13.90713 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 12.089263 13.91074 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 12.085892 13.91411 1.0000000
## 41 Quadrat.11 464 Extrapolation 0 13.000000 11.301271 14.69873 1.0000000
## SC.LCL SC.UCL
## 1 0.9807097 1.0000000
## 2 0.9803200 1.0000000
## 3 0.9805111 1.0000000
## 4 0.9979543 1.0000000
## 5 0.9973245 1.0000000
## 6 0.9973955 1.0000000
## 7 0.9974079 1.0000000
## 8 0.9976271 1.0000000
## 9 0.9828064 0.9947721
## 10 0.9826517 0.9949519
## 11 0.9826628 0.9949660
## 12 0.9828534 0.9951984
## 13 0.9823993 0.9971925
## 14 0.9819727 0.9976655
## 15 0.9820028 0.9976815
## 16 0.9867142 0.9994494
## 17 0.9778739 1.0000000
## 18 0.9777450 1.0000000
## 19 0.9778665 1.0000000
## 20 0.9896918 1.0000000
## 21 0.9885498 0.9985378
## 22 0.9833145 0.9983928
## 23 0.9830131 0.9988788
## 24 0.9831028 0.9989718
## 25 0.9903798 1.0000000
## 26 0.9940506 1.0000000
## 27 0.9936483 1.0000000
## 28 0.9936750 1.0000000
## 29 0.9944925 1.0000000
## 30 0.9133932 0.9890458
## 31 0.9148614 0.9904986
## 32 0.9162938 0.9918997
## 33 0.9927978 1.0000000
## 34 0.9837699 1.0000000
## 35 0.9838178 1.0000000
## 36 0.9838656 1.0000000
## 37 0.9916129 1.0000000
## 38 0.9896892 1.0000000
## 39 0.9893434 1.0000000
## 40 0.9894506 1.0000000
## 41 0.9988232 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 7.764577 12.20749
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.772151 12.22785
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 7.772588 12.24234
## 4 Quadrat.1 0.9999512 464 Extrapolation 0 10.492969 7.752910 13.23303
## 5 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.784774 15.21523
## 6 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 8.990587 18.96506
## 7 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.997184 19.00282
## 8 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 9.001456 19.02094
## 9 Quadrat.3 0.9890259 464 Extrapolation 0 14.199656 9.073156 19.32616
## 10 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 7.379597 16.58566
## 11 Quadrat.4 0.9898191 294 Observed 0 12.000000 7.391706 16.60829
## 12 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 7.395674 16.62469
## 13 Quadrat.4 0.9930818 464 Extrapolation 0 13.437240 8.146038 18.72844
## 14 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 13.257451 24.70870
## 15 Quadrat.5 0.9892989 277 Observed 0 19.000000 13.248333 24.75167
## 16 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 13.232387 24.78902
## 17 Quadrat.5 0.9988664 464 Extrapolation 0 19.801753 11.818525 27.78498
## 18 Quadrat.6 0.9935438 464 Observed 0 10.000000 5.766940 14.23306
## 19 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 10.657767 19.31869
## 20 Quadrat.7 0.9909460 328 Observed 0 15.000000 10.648579 19.35142
## 21 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 10.636465 19.38164
## 22 Quadrat.7 0.9977207 464 Extrapolation 0 15.671373 9.412747 21.93000
## 23 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.116092 16.87711
## 24 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.115369 16.88463
## 25 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.113130 16.89150
## 26 Quadrat.8 0.9983453 464 Extrapolation 0 14.071118 11.042228 17.10001
## 27 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.441989 21.38658
## 28 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.417172 21.58283
## 29 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 10.354421 21.74022
## 30 Quadrat.9 0.9999996 464 Extrapolation 0 17.580473 7.910045 27.25090
## 31 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.932746 13.03530
## 32 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.943785 13.05622
## 33 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.951289 13.06465
## 34 Quadrat.10 0.9966205 464 Extrapolation 0 11.147134 7.372928 14.92134
## 35 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.162828 14.83717
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.8658101 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4539404 4.212484
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3832365 2.601333
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.6386474 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2867359 3.916551
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1878995 3.101623
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.9557091 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5537079 7.949496
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6291138 5.618280
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6264976 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.2705378 9.441789
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3031757 7.894867
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.0060191 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2559723 5.478468
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1820240 4.154331
## 16 Quadrat.4 Species richness 12.000000 16.484694 5.0006573 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3492677 5.823732
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3307463 4.176550
## 19 Quadrat.5 Species richness 19.000000 19.896751 5.1768682 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4371688 4.412407
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2117885 2.358319
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.5490111 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1862755 3.991975
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1358921 3.442900
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.8069569 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3331446 5.924425
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3205464 4.223197
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.0237043 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.2947184 5.768980
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2297207 3.934497
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.5039309 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.2272833 7.063713
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8968658 4.037987
## UCL
## 1 14.153133
## 2 5.991898
## 3 4.103592
## 4 17.163654
## 5 5.040535
## 6 3.838176
## 7 14.873156
## 8 10.119991
## 9 8.084361
## 10 15.227913
## 11 10.502278
## 12 9.083294
## 13 35.749160
## 14 6.481861
## 15 4.867852
## 16 26.285802
## 17 7.192837
## 18 5.473052
## 19 30.043226
## 20 6.126077
## 21 3.188514
## 22 23.406200
## 23 4.722162
## 24 3.975588
## 25 23.358755
## 26 7.230328
## 27 5.479716
## 28 18.215803
## 29 6.924255
## 30 4.834985
## 31 28.367994
## 32 11.874575
## 33 7.553636
s <- c(328)
Barrow_Datas <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = s)
Barrow_Datas
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.505273 11.47958 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.505237 11.49476 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.503357 11.51157 0.9926504
## 4 Quadrat.1 328 Extrapolation 0 10.470749 7.559915 13.38158 0.9996171
## 5 Quadrat.2 328 Rarefaction 0 13.913256 13.207845 14.61867 0.9983142
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.240419 14.75958 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.239362 14.76064 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.238481 14.76152 1.0000000
## 9 Quadrat.3 328 Rarefaction 0 12.672411 9.788997 15.55582 0.9886292
## 10 Quadrat.3 445 Rarefaction 0 13.988789 10.316862 17.66072 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 10.321716 17.67828 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 10.326300 17.69610 0.9888144
## 13 Quadrat.4 293 Rarefaction 0 11.989796 9.224168 14.75542 0.9897959
## 14 Quadrat.4 294 Observed 0 12.000000 9.227061 14.77294 0.9898191
## 15 Quadrat.4 295 Extrapolation 0 12.010181 9.229765 14.79060 0.9898422
## 16 Quadrat.4 328 Extrapolation 0 12.333494 9.306183 15.36080 0.9905762
## 17 Quadrat.5 276 Rarefaction 0 18.989170 16.223364 21.75498 0.9891697
## 18 Quadrat.5 277 Observed 0 19.000000 16.228192 21.77181 0.9892989
## 19 Quadrat.5 278 Extrapolation 0 19.010701 16.232871 21.78853 0.9894266
## 20 Quadrat.5 328 Extrapolation 0 19.410597 16.303323 22.51787 0.9941986
## 21 Quadrat.6 328 Rarefaction 0 9.010393 7.081415 10.93937 0.9917281
## 22 Quadrat.6 463 Rarefaction 0 9.993534 7.740569 12.24650 0.9935345
## 23 Quadrat.6 464 Observed 0 10.000000 7.744694 12.25531 0.9935438
## 24 Quadrat.6 465 Extrapolation 0 10.006456 7.748634 12.26428 0.9935531
## 25 Quadrat.7 328 Observed 0 15.000000 12.835149 17.16485 0.9909460
## 26 Quadrat.8 328 Rarefaction 0 13.644876 12.128853 15.16090 0.9950884
## 27 Quadrat.8 427 Rarefaction 0 13.997664 12.272201 15.72313 0.9976636
## 28 Quadrat.8 428 Observed 0 14.000000 12.272180 15.72782 0.9976852
## 29 Quadrat.8 429 Extrapolation 0 14.002315 12.271829 15.73280 0.9977067
## 30 Quadrat.9 81 Rarefaction 0 15.951220 12.976498 18.92594 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 12.999740 19.00026 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.020945 19.07369 0.9540968
## 33 Quadrat.9 328 Extrapolation 0 17.579594 10.383647 24.77554 0.9999732
## 34 Quadrat.10 249 Rarefaction 0 9.992000 8.159665 11.82433 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 8.161391 11.83861 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 8.162697 11.85324 0.9920639
## 37 Quadrat.10 328 Extrapolation 0 10.534805 8.192645 12.87696 0.9941712
## 38 Quadrat.11 154 Rarefaction 0 13.000000 12.077251 13.92275 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 12.076441 13.92356 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 12.074056 13.92594 1.0000000
## 41 Quadrat.11 328 Extrapolation 0 13.000000 11.644009 14.35599 1.0000000
## SC.LCL SC.UCL
## 1 0.9773624 1.0000000
## 2 0.9760504 1.0000000
## 3 0.9762691 1.0000000
## 4 0.9938035 1.0000000
## 5 0.9954446 1.0000000
## 6 0.9967981 1.0000000
## 7 0.9967861 1.0000000
## 8 0.9967988 1.0000000
## 9 0.9808797 0.9963787
## 10 0.9815106 0.9960678
## 11 0.9812075 0.9963962
## 12 0.9812243 0.9964045
## 13 0.9805585 0.9990334
## 14 0.9803718 0.9992663
## 15 0.9803997 0.9992847
## 16 0.9813339 0.9998185
## 17 0.9764447 1.0000000
## 18 0.9765550 1.0000000
## 19 0.9766643 1.0000000
## 20 0.9810899 1.0000000
## 21 0.9876796 0.9957766
## 22 0.9890115 0.9980574
## 23 0.9888690 0.9982186
## 24 0.9888777 0.9982284
## 25 0.9831843 0.9987076
## 26 0.9907242 0.9994526
## 27 0.9929244 1.0000000
## 28 0.9926130 1.0000000
## 29 0.9926430 1.0000000
## 30 0.9146820 0.9877570
## 31 0.9151710 0.9901890
## 32 0.9165706 0.9916230
## 33 0.9876544 1.0000000
## 34 0.9835162 1.0000000
## 35 0.9830182 1.0000000
## 36 0.9830741 1.0000000
## 37 0.9867891 1.0000000
## 38 0.9909283 1.0000000
## 39 0.9908148 1.0000000
## 40 0.9909122 1.0000000
## 41 0.9974253 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 6.868937 13.10313
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.873121 13.12688
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 6.870550 13.14437
## 4 Quadrat.1 0.9996171 328 Extrapolation 0 10.470749 6.646723 14.29477
## 5 Quadrat.2 0.9983142 328 Rarefaction 0 13.913256 12.817469 15.00904
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.644334 15.35567
## 7 Quadrat.3 0.9886292 328 Rarefaction 0 12.672411 6.741566 18.60326
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 7.818606 20.13704
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 7.828402 20.17160
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 7.831226 20.19117
## 11 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 6.117721 17.84753
## 12 Quadrat.4 0.9898191 294 Observed 0 12.000000 6.127184 17.87282
## 13 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 6.135741 17.88462
## 14 Quadrat.4 0.9905762 328 Extrapolation 0 12.333494 6.241999 18.42499
## 15 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 11.403606 26.56254
## 16 Quadrat.5 0.9892989 277 Observed 0 19.000000 11.366955 26.63304
## 17 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 11.324750 26.69665
## 18 Quadrat.5 0.9941986 328 Extrapolation 0 19.410597 9.667177 29.15402
## 19 Quadrat.6 0.9917281 328 Rarefaction 0 9.010393 5.568336 12.45245
## 20 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 6.262327 13.71816
## 21 Quadrat.6 0.9935438 464 Observed 0 10.000000 6.270095 13.72990
## 22 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 6.274653 13.73826
## 23 Quadrat.7 0.9909460 328 Observed 0 15.000000 10.714967 19.28503
## 24 Quadrat.8 0.9950884 328 Rarefaction 0 13.644876 11.094071 16.19568
## 25 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 10.873565 17.11964
## 26 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.870844 17.12916
## 27 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 10.866852 17.13778
## 28 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.283002 21.54557
## 29 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.273570 21.72643
## 30 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 10.226327 21.86831
## 31 Quadrat.9 0.9999732 328 Extrapolation 0 17.579594 8.003371 27.15582
## 32 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.725809 13.24223
## 33 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.735570 13.26443
## 34 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.739227 13.27671
## 35 Quadrat.10 0.9941712 328 Extrapolation 0 10.534805 6.857364 14.21225
## 36 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.360016 14.63998
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.2720944 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5038599 4.114644
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3933388 2.581532
## 4 Quadrat.10 Species richness 10.000000 11.992000 3.0936330 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2981740 3.894132
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1826488 3.111915
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.9087292 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5878580 7.882563
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6897729 5.499390
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6154879 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3336444 9.318103
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3899910 7.724712
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.5262893 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.3179413 5.357011
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1966859 4.125595
## 16 Quadrat.4 Species richness 12.000000 16.484694 3.8561460 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3437554 5.834536
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3590906 4.120997
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.6659488 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4587390 4.370130
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2308451 2.320968
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.7091346 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1674727 4.028828
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1240693 3.466073
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.2344799 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3749127 5.842561
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3339093 4.197006
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.1598625 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3259255 5.707815
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2585455 3.878001
## 31 Quadrat.9 Species richness 16.000000 17.580488 6.3795661 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1863898 7.143863
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8736309 4.083526
## UCL
## 1 14.949435
## 2 6.089738
## 3 4.123392
## 4 18.055409
## 5 5.062953
## 6 3.827885
## 7 14.781076
## 8 10.186924
## 9 8.203250
## 10 15.206334
## 11 10.625964
## 12 9.253449
## 13 36.768871
## 14 6.603318
## 15 4.896589
## 16 24.042601
## 17 7.182033
## 18 5.528606
## 19 29.041842
## 20 6.168354
## 21 3.225865
## 22 23.720036
## 23 4.685309
## 24 3.952415
## 25 24.196684
## 26 7.312192
## 27 5.505907
## 28 18.482669
## 29 6.985420
## 30 4.891481
## 31 30.084208
## 32 11.794426
## 33 7.508097
t <- c(428)
Barrow_Datat <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = t)
Barrow_Datat
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.318170 11.66668 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.321899 11.67810 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.325072 11.68985 0.9926504
## 4 Quadrat.1 428 Extrapolation 0 10.490616 7.078807 13.90242 0.9999158
## 5 Quadrat.2 428 Rarefaction 0 13.998741 13.249230 14.74825 0.9998402
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.240110 14.75989 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.239362 14.76064 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.238984 14.76102 1.0000000
## 9 Quadrat.3 428 Rarefaction 0 13.798204 11.482958 16.11345 0.9887888
## 10 Quadrat.3 445 Rarefaction 0 13.988789 11.585405 16.39217 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 11.591393 16.40861 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 11.597235 16.42516 0.9888144
## 13 Quadrat.4 293 Rarefaction 0 11.989796 9.496405 14.48319 0.9897959
## 14 Quadrat.4 294 Observed 0 12.000000 9.499096 14.50090 0.9898191
## 15 Quadrat.4 295 Extrapolation 0 12.010181 9.501486 14.51888 0.9898422
## 16 Quadrat.4 428 Extrapolation 0 13.177419 9.674029 16.68081 0.9924920
## 17 Quadrat.5 276 Rarefaction 0 18.989170 16.710353 21.26799 0.9891697
## 18 Quadrat.5 277 Observed 0 19.000000 16.715338 21.28466 0.9892989
## 19 Quadrat.5 278 Extrapolation 0 19.010701 16.720167 21.30123 0.9894266
## 20 Quadrat.5 428 Extrapolation 0 19.750396 16.410148 23.09064 0.9982535
## 21 Quadrat.6 428 Rarefaction 0 9.760945 7.528654 11.99324 0.9931727
## 22 Quadrat.6 463 Rarefaction 0 9.993534 7.588640 12.39843 0.9935345
## 23 Quadrat.6 464 Observed 0 10.000000 7.590092 12.40991 0.9935438
## 24 Quadrat.6 465 Extrapolation 0 10.006456 7.591168 12.42174 0.9935531
## 25 Quadrat.7 327 Rarefaction 0 14.990854 12.300885 17.68082 0.9908537
## 26 Quadrat.7 328 Observed 0 15.000000 12.305931 17.69407 0.9909460
## 27 Quadrat.7 329 Extrapolation 0 15.009054 12.310686 17.70742 0.9910373
## 28 Quadrat.7 428 Extrapolation 0 15.571831 12.435472 18.70819 0.9967162
## 29 Quadrat.8 428 Observed 0 14.000000 12.152883 15.84712 0.9976852
## 30 Quadrat.9 81 Rarefaction 0 15.951220 13.095669 18.80677 0.9512195
## 31 Quadrat.9 82 Observed 0 16.000000 13.123811 18.87619 0.9526800
## 32 Quadrat.9 83 Extrapolation 0 16.047320 13.150437 18.94420 0.9540968
## 33 Quadrat.9 428 Extrapolation 0 17.580445 8.467736 26.69315 0.9999987
## 34 Quadrat.10 249 Rarefaction 0 9.992000 8.391687 11.59231 0.9920000
## 35 Quadrat.10 250 Observed 0 10.000000 8.394479 11.60552 0.9920320
## 36 Quadrat.10 251 Extrapolation 0 10.007968 8.396625 11.61931 0.9920639
## 37 Quadrat.10 428 Extrapolation 0 11.015996 8.323267 13.70872 0.9960960
## 38 Quadrat.11 154 Rarefaction 0 13.000000 11.997007 14.00299 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 11.995134 14.00487 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 11.992818 14.00718 1.0000000
## 41 Quadrat.11 428 Extrapolation 0 13.000000 11.275197 14.72480 1.0000000
## SC.LCL SC.UCL
## 1 0.9762115 1.0000000
## 2 0.9758477 1.0000000
## 3 0.9760371 1.0000000
## 4 0.9955848 1.0000000
## 5 0.9973882 1.0000000
## 6 0.9975156 1.0000000
## 7 0.9978807 1.0000000
## 8 0.9978887 1.0000000
## 9 0.9826963 0.9948814
## 10 0.9826120 0.9949665
## 11 0.9824657 0.9951380
## 12 0.9824800 0.9951488
## 13 0.9811456 0.9984462
## 14 0.9809701 0.9986681
## 15 0.9810006 0.9986838
## 16 0.9847445 1.0000000
## 17 0.9767076 1.0000000
## 18 0.9768197 1.0000000
## 19 0.9769317 1.0000000
## 20 0.9880834 1.0000000
## 21 0.9868909 0.9994544
## 22 0.9870938 0.9999752
## 23 0.9866927 1.0000000
## 24 0.9867041 1.0000000
## 25 0.9830066 0.9987007
## 26 0.9829023 0.9989896
## 27 0.9829978 0.9990768
## 28 0.9893062 1.0000000
## 29 0.9926449 1.0000000
## 30 0.9108293 0.9916097
## 31 0.9120867 0.9932733
## 32 0.9133189 0.9948747
## 33 0.9894076 1.0000000
## 34 0.9826282 1.0000000
## 35 0.9821634 1.0000000
## 36 0.9822179 1.0000000
## 37 0.9894821 1.0000000
## 38 0.9907890 1.0000000
## 39 0.9903299 1.0000000
## 40 0.9904222 1.0000000
## 41 0.9980435 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 6.634028 13.33804
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.636486 13.36351
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 6.632619 13.38231
## 4 Quadrat.1 0.9999158 428 Extrapolation 0 10.490616 6.308141 14.67309
## 5 Quadrat.2 0.9998402 428 Rarefaction 0 13.998741 12.934766 15.06272
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.916484 15.08352
## 7 Quadrat.3 0.9887888 428 Rarefaction 0 13.798204 9.063386 18.53302
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 9.231975 18.72368
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 9.244812 18.75519
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 9.248851 18.77354
## 11 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 6.746636 17.21862
## 12 Quadrat.4 0.9898191 294 Observed 0 12.000000 6.756279 17.24372
## 13 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 6.759139 17.26122
## 14 Quadrat.4 0.9924920 428 Extrapolation 0 13.177419 7.119592 19.23525
## 15 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 13.913411 24.05273
## 16 Quadrat.5 0.9892989 277 Observed 0 19.000000 13.904888 24.09511
## 17 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 13.890078 24.13132
## 18 Quadrat.5 0.9982535 428 Extrapolation 0 19.750396 12.554588 26.94620
## 19 Quadrat.6 0.9931727 428 Rarefaction 0 9.760945 2.911514 16.61038
## 20 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 2.982796 16.99769
## 21 Quadrat.6 0.9935438 464 Observed 0 10.000000 2.986730 17.01327
## 22 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 2.988719 17.02419
## 23 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 10.390811 19.58564
## 24 Quadrat.7 0.9909460 328 Observed 0 15.000000 10.383406 19.61659
## 25 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 10.373515 19.64459
## 26 Quadrat.7 0.9967162 428 Extrapolation 0 15.571831 9.566506 21.57715
## 27 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.505551 17.49445
## 28 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 10.073691 21.75488
## 29 Quadrat.9 0.9526800 82 Observed 0 16.000000 10.034076 21.96592
## 30 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 9.953377 22.14126
## 31 Quadrat.9 0.9999987 428 Extrapolation 0 17.580445 6.402644 28.75825
## 32 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 6.547856 13.42019
## 33 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.557477 13.44252
## 34 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 6.561909 13.45403
## 35 Quadrat.10 0.9960960 428 Extrapolation 0 11.015996 6.786523 15.24547
## 36 Quadrat.11 1.0000000 155 Observed 0 13.000000 10.962678 15.03732
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.0096881 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5282861 4.066769
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4275342 2.514510
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.6996880 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2992353 3.892052
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.2008503 3.076240
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.8838920 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.6332143 7.793667
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.7041444 5.471223
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5771965 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3627830 9.260992
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.4170912 7.671597
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.3729342 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2801748 5.431032
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1873403 4.143912
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.6986418 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3153488 5.890212
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3356623 4.166915
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.4252690 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4713613 4.345390
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2335930 2.315583
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.7271199 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1683551 4.027098
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1209790 3.472130
## 25 Quadrat.7 Species richness 15.000000 15.897256 5.2418188 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3066547 5.976344
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.2673677 4.327425
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.1021535 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3161426 5.726989
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2276458 3.938563
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.8534683 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1017846 7.309686
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8746031 4.081621
## UCL
## 1 14.435128
## 2 6.137613
## 3 4.190414
## 4 17.283291
## 5 5.065033
## 6 3.863559
## 7 14.732396
## 8 10.275821
## 9 8.231418
## 10 15.131284
## 11 10.683075
## 12 9.306564
## 13 36.468300
## 14 6.529297
## 15 4.878272
## 16 25.693863
## 17 7.126357
## 18 5.482687
## 19 28.570119
## 20 6.193093
## 21 3.231250
## 22 23.755286
## 23 4.687038
## 24 3.946359
## 25 26.171032
## 26 7.178408
## 27 5.375488
## 28 18.369561
## 29 6.966246
## 30 4.830918
## 31 29.053075
## 32 11.628603
## 33 7.510002
u <- c(82)
Barrow_Datau <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = u)
Barrow_Datau
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 82 Rarefaction 0 9.369742 8.060285 10.679199 0.9789969
## 2 Quadrat.1 131 Rarefaction 0 9.992424 8.253920 11.730929 0.9924242
## 3 Quadrat.1 132 Observed 0 10.000000 8.251881 11.748119 0.9925382
## 4 Quadrat.1 133 Extrapolation 0 10.007462 8.249051 11.765873 0.9926504
## 5 Quadrat.2 82 Rarefaction 0 12.036400 11.394132 12.678668 0.9778099
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.208096 14.791904 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.208055 14.791945 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.207654 14.792346 1.0000000
## 9 Quadrat.3 82 Rarefaction 0 9.243779 8.462457 10.025101 0.9756266
## 10 Quadrat.3 445 Rarefaction 0 13.988789 11.057347 16.920232 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 11.064457 16.935543 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 11.071192 16.951204 0.9888144
## 13 Quadrat.4 82 Rarefaction 0 9.193435 7.998235 10.388636 0.9798275
## 14 Quadrat.4 293 Rarefaction 0 11.989796 9.258922 14.720670 0.9897959
## 15 Quadrat.4 294 Observed 0 12.000000 9.263489 14.736511 0.9898191
## 16 Quadrat.4 295 Extrapolation 0 12.010181 9.267460 14.752902 0.9898422
## 17 Quadrat.5 82 Rarefaction 0 12.591493 11.117509 14.065478 0.9305785
## 18 Quadrat.5 276 Rarefaction 0 18.989170 15.964087 22.014252 0.9891697
## 19 Quadrat.5 277 Observed 0 19.000000 15.966478 22.033522 0.9892989
## 20 Quadrat.5 278 Extrapolation 0 19.010701 15.968740 22.052662 0.9894266
## 21 Quadrat.6 82 Rarefaction 0 6.087174 5.197647 6.976701 0.9812474
## 22 Quadrat.6 463 Rarefaction 0 9.993534 6.856235 13.130834 0.9935345
## 23 Quadrat.6 464 Observed 0 10.000000 6.858063 13.141937 0.9935438
## 24 Quadrat.6 465 Extrapolation 0 10.006456 6.859882 13.153030 0.9935531
## 25 Quadrat.7 82 Rarefaction 0 9.832873 8.683172 10.982573 0.9636396
## 26 Quadrat.7 327 Rarefaction 0 14.990854 12.489892 17.491815 0.9908537
## 27 Quadrat.7 328 Observed 0 15.000000 12.495650 17.504350 0.9909460
## 28 Quadrat.7 329 Extrapolation 0 15.009054 12.501321 17.516787 0.9910373
## 29 Quadrat.8 82 Rarefaction 0 10.638591 9.769800 11.507381 0.9694677
## 30 Quadrat.8 427 Rarefaction 0 13.997664 12.076952 15.918375 0.9976636
## 31 Quadrat.8 428 Observed 0 14.000000 12.078003 15.921997 0.9976852
## 32 Quadrat.8 429 Extrapolation 0 14.002315 12.078457 15.926172 0.9977067
## 33 Quadrat.9 82 Observed 0 16.000000 13.231305 18.768695 0.9526800
## 34 Quadrat.10 82 Rarefaction 0 7.785099 6.778428 8.791771 0.9736181
## 35 Quadrat.10 249 Rarefaction 0 9.992000 8.334386 11.649614 0.9920000
## 36 Quadrat.10 250 Observed 0 10.000000 8.338330 11.661670 0.9920320
## 37 Quadrat.10 251 Extrapolation 0 10.007968 8.340977 11.674959 0.9920639
## 38 Quadrat.11 82 Rarefaction 0 12.495443 11.458988 13.531898 0.9789548
## 39 Quadrat.11 154 Rarefaction 0 13.000000 12.046501 13.953499 1.0000000
## 40 Quadrat.11 155 Observed 0 13.000000 12.045550 13.954450 1.0000000
## 41 Quadrat.11 156 Extrapolation 0 13.000000 12.044584 13.955416 1.0000000
## SC.LCL SC.UCL
## 1 0.9619928 0.9960011
## 2 0.9748710 1.0000000
## 3 0.9743526 1.0000000
## 4 0.9745468 1.0000000
## 5 0.9727233 0.9828965
## 6 0.9976003 1.0000000
## 7 0.9980788 1.0000000
## 8 0.9980889 1.0000000
## 9 0.9659112 0.9853419
## 10 0.9832051 0.9943734
## 11 0.9828478 0.9947558
## 12 0.9828622 0.9947665
## 13 0.9680507 0.9916043
## 14 0.9814759 0.9981159
## 15 0.9809110 0.9987271
## 16 0.9809489 0.9987355
## 17 0.9173958 0.9437612
## 18 0.9773048 1.0000000
## 19 0.9774362 1.0000000
## 20 0.9775663 1.0000000
## 21 0.9715287 0.9909661
## 22 0.9874395 0.9996295
## 23 0.9874505 0.9996370
## 24 0.9874616 0.9996445
## 25 0.9527135 0.9745657
## 26 0.9832913 0.9984160
## 27 0.9833893 0.9985026
## 28 0.9834863 0.9985883
## 29 0.9609891 0.9779463
## 30 0.9938255 1.0000000
## 31 0.9934649 1.0000000
## 32 0.9934945 1.0000000
## 33 0.9133817 0.9919783
## 34 0.9654676 0.9817685
## 35 0.9851160 0.9988840
## 36 0.9840984 0.9999656
## 37 0.9841615 0.9999662
## 38 0.9676926 0.9902171
## 39 0.9905927 1.0000000
## 40 0.9901316 1.0000000
## 41 0.9902342 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9789970 82 Rarefaction 0 9.369742 6.577081 12.162403
## 2 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 5.768569 14.203499
## 3 Quadrat.1 0.9925382 132 Observed 0 10.000000 5.768994 14.231006
## 4 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 5.763529 14.251394
## 5 Quadrat.2 0.9778099 82 Rarefaction 0 12.036400 11.201216 12.871584
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 13.044641 14.955359
## 7 Quadrat.3 0.9756266 82 Rarefaction 0 9.243779 7.700521 10.787038
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 9.707920 18.247732
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 9.722908 18.277092
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 9.727389 18.295007
## 11 Quadrat.4 0.9798275 82 Rarefaction 0 9.193435 6.785843 11.601027
## 12 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 7.531505 16.433749
## 13 Quadrat.4 0.9898191 294 Observed 0 12.000000 7.542066 16.457934
## 14 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 7.549541 16.470821
## 15 Quadrat.5 0.9305786 82 Rarefaction 0 12.591494 10.274886 14.908102
## 16 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 11.520071 26.446075
## 17 Quadrat.5 0.9892989 277 Observed 0 19.000000 11.496396 26.503604
## 18 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 11.466615 26.554788
## 19 Quadrat.6 0.9812474 82 Rarefaction 0 6.087174 3.530341 8.644007
## 20 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 2.632035 17.348454
## 21 Quadrat.6 0.9935438 464 Observed 0 10.000000 2.637192 17.362808
## 22 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 2.641117 17.371795
## 23 Quadrat.7 0.9636396 82 Rarefaction 0 9.832873 7.901993 11.763753
## 24 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 11.139966 18.836489
## 25 Quadrat.7 0.9909460 328 Observed 0 15.000000 11.136154 18.863846
## 26 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 11.129361 18.888747
## 27 Quadrat.8 0.9694677 82 Rarefaction 0 10.638590 9.330419 11.946762
## 28 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.127459 16.865745
## 29 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.125006 16.874994
## 30 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.121488 16.883142
## 31 Quadrat.9 0.9526800 82 Observed 0 16.000000 9.551156 22.448844
## 32 Quadrat.10 0.9736181 82 Rarefaction 0 7.785099 6.416534 9.153665
## 33 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 7.465075 12.502966
## 34 Quadrat.10 0.9920320 250 Observed 0 10.000000 7.477525 12.522475
## 35 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 7.480343 12.535593
## 36 Quadrat.11 0.9789548 82 Rarefaction 0 12.495442 11.503952 13.486933
## 37 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.396624 14.603376
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.6407546 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4803391 4.160744
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4235033 2.522411
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.2117318 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.3111456 3.868709
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.2063799 3.065402
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.8619469 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5540871 7.948753
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6273053 5.621824
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6570164 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3420030 9.301720
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3667967 7.770172
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.7517676 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.3188289 5.355271
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2238087 4.072435
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.5098474 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3754642 5.772388
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3548085 4.129389
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.4017252 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4578967 4.371781
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2279265 2.326689
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.5840538 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1708795 4.022151
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1347404 3.445158
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.5802232 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3626582 5.866579
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3315847 4.201562
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.2329357 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3433493 5.673665
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2564229 3.882161
## 31 Quadrat.9 Species richness 16.000000 17.580488 6.8518863 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.2928016 6.935300
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8860144 4.059255
## UCL
## 1 13.712032
## 2 6.043638
## 3 4.182513
## 4 16.326915
## 5 5.088377
## 6 3.874397
## 7 14.689385
## 8 10.120735
## 9 8.080816
## 10 15.287728
## 11 10.642347
## 12 9.207989
## 13 37.210800
## 14 6.605058
## 15 4.949749
## 16 25.323832
## 17 7.244181
## 18 5.520213
## 19 28.523974
## 20 6.166703
## 21 3.220144
## 22 23.474882
## 23 4.691986
## 24 3.973330
## 25 24.874329
## 26 7.288173
## 27 5.501351
## 28 18.625889
## 29 7.019570
## 30 4.887320
## 31 31.009938
## 32 12.002989
## 33 7.532368
v <- c(250)
Barrow_Datav <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = v)
Barrow_Datav
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.184606 11.80024 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.185426 11.81457 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.184492 11.83043 0.9926504
## 4 Quadrat.1 250 Extrapolation 0 10.413191 7.666941 13.15944 0.9987516
## 5 Quadrat.2 250 Rarefaction 0 13.704789 12.870477 14.53910 0.9961519
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.180666 14.81933 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.179849 14.82015 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.178947 14.82105 1.0000000
## 9 Quadrat.3 250 Rarefaction 0 11.765789 9.758814 13.77276 0.9880285
## 10 Quadrat.3 445 Rarefaction 0 13.988789 10.757289 17.22029 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 10.762698 17.23730 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 10.767925 17.25447 0.9888144
## 13 Quadrat.4 250 Rarefaction 0 11.529057 9.454556 13.60356 0.9887975
## 14 Quadrat.4 293 Rarefaction 0 11.989796 9.659415 14.32018 0.9897959
## 15 Quadrat.4 294 Observed 0 12.000000 9.663762 14.33624 0.9898191
## 16 Quadrat.4 295 Extrapolation 0 12.010181 9.667111 14.35325 0.9898422
## 17 Quadrat.5 250 Rarefaction 0 18.658257 15.885291 21.43122 0.9853869
## 18 Quadrat.5 276 Rarefaction 0 18.989170 16.007767 21.97057 0.9891697
## 19 Quadrat.5 277 Observed 0 19.000000 16.010473 21.98953 0.9892989
## 20 Quadrat.5 278 Extrapolation 0 19.010701 16.013050 22.00835 0.9894266
## 21 Quadrat.6 250 Rarefaction 0 8.304937 6.305286 10.30459 0.9901154
## 22 Quadrat.6 463 Rarefaction 0 9.993534 6.781668 13.20540 0.9935345
## 23 Quadrat.6 464 Observed 0 10.000000 6.783104 13.21690 0.9935438
## 24 Quadrat.6 465 Extrapolation 0 10.006456 6.784530 13.22838 0.9935531
## 25 Quadrat.7 250 Rarefaction 0 14.006600 11.727731 16.28547 0.9836745
## 26 Quadrat.7 327 Rarefaction 0 14.990854 12.368953 17.61275 0.9908537
## 27 Quadrat.7 328 Observed 0 15.000000 12.373415 17.62658 0.9909460
## 28 Quadrat.7 329 Extrapolation 0 15.009054 12.377773 17.64034 0.9910373
## 29 Quadrat.8 250 Rarefaction 0 13.154051 11.829992 14.47811 0.9921715
## 30 Quadrat.8 427 Rarefaction 0 13.997664 12.355067 15.64026 0.9976636
## 31 Quadrat.8 428 Observed 0 14.000000 12.355403 15.64460 0.9976852
## 32 Quadrat.8 429 Extrapolation 0 14.002315 12.355523 15.64911 0.9977067
## 33 Quadrat.9 81 Rarefaction 0 15.951220 12.858961 19.04348 0.9512195
## 34 Quadrat.9 82 Observed 0 16.000000 12.886890 19.11311 0.9526800
## 35 Quadrat.9 83 Extrapolation 0 16.047320 12.913314 19.18133 0.9540968
## 36 Quadrat.9 250 Extrapolation 0 17.570917 10.027617 25.11422 0.9997135
## 37 Quadrat.10 250 Observed 0 10.000000 7.963916 12.03608 0.9920320
## 38 Quadrat.11 154 Rarefaction 0 13.000000 11.995239 14.00476 1.0000000
## 39 Quadrat.11 155 Observed 0 13.000000 11.995134 14.00487 1.0000000
## 40 Quadrat.11 156 Extrapolation 0 13.000000 11.994406 14.00559 1.0000000
## 41 Quadrat.11 250 Extrapolation 0 13.000000 11.833585 14.16642 1.0000000
## SC.LCL SC.UCL
## 1 0.9770578 1.0000000
## 2 0.9759607 1.0000000
## 3 0.9761660 1.0000000
## 4 0.9897828 1.0000000
## 5 0.9932387 0.9990650
## 6 0.9967981 1.0000000
## 7 0.9968094 1.0000000
## 8 0.9968206 1.0000000
## 9 0.9806701 0.9953869
## 10 0.9822025 0.9953760
## 11 0.9820517 0.9955520
## 12 0.9820645 0.9955642
## 13 0.9813575 0.9962376
## 14 0.9821723 0.9974196
## 15 0.9810634 0.9985747
## 16 0.9810968 0.9985876
## 17 0.9728254 0.9979484
## 18 0.9762250 1.0000000
## 19 0.9763521 1.0000000
## 20 0.9764775 1.0000000
## 21 0.9829634 0.9972675
## 22 0.9873047 0.9997642
## 23 0.9873149 0.9997727
## 24 0.9873250 0.9997811
## 25 0.9754450 0.9919040
## 26 0.9816589 1.0000000
## 27 0.9817449 1.0000000
## 28 0.9818303 1.0000000
## 29 0.9882283 0.9961147
## 30 0.9935261 1.0000000
## 31 0.9932319 1.0000000
## 32 0.9932572 1.0000000
## 33 0.9113260 0.9911130
## 34 0.9125471 0.9928129
## 35 0.9137321 0.9944615
## 36 0.9708982 1.0000000
## 37 0.9826520 1.0000000
## 38 0.9914926 1.0000000
## 39 0.9916236 1.0000000
## 40 0.9917182 1.0000000
## 41 0.9964636 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 6.564050 13.40802
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.567650 13.43235
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 6.563661 13.45126
## 4 Quadrat.1 0.9987516 250 Extrapolation 0 10.413191 6.315416 14.51097
## 5 Quadrat.2 0.9961519 250 Rarefaction 0 13.704789 12.651174 14.75840
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.494781 15.50522
## 7 Quadrat.3 0.9880285 250 Rarefaction 0 11.765789 6.833775 16.69780
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 8.562163 19.39349
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.574904 19.42510
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 8.577820 19.44458
## 11 Quadrat.4 0.9887975 250 Rarefaction 0 11.529057 7.562710 15.49540
## 12 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 7.787810 16.17744
## 13 Quadrat.4 0.9898191 294 Observed 0 12.000000 7.797874 16.20213
## 14 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 7.800957 16.21940
## 15 Quadrat.5 0.9853869 250 Rarefaction 0 18.658258 10.856816 26.45970
## 16 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 9.530717 28.43543
## 17 Quadrat.5 0.9892989 277 Observed 0 19.000000 9.489827 28.51017
## 18 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 9.443079 28.57832
## 19 Quadrat.6 0.9901154 250 Rarefaction 0 8.304937 3.292298 13.31758
## 20 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 3.909974 16.07052
## 21 Quadrat.6 0.9935438 464 Observed 0 10.000000 3.916568 16.08343
## 22 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 3.920617 16.09230
## 23 Quadrat.7 0.9836745 250 Rarefaction 0 14.006601 10.349911 17.66329
## 24 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 9.188215 20.78824
## 25 Quadrat.7 0.9909460 328 Observed 0 15.000000 9.164473 20.83553
## 26 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 9.137619 20.88049
## 27 Quadrat.8 0.9921715 250 Rarefaction 0 13.154051 11.016835 15.29127
## 28 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 10.595523 17.39768
## 29 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.592374 17.40763
## 30 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 10.587908 17.41672
## 31 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 7.359687 24.46888
## 32 Quadrat.9 0.9526800 82 Observed 0 16.000000 7.277085 24.72292
## 33 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 7.155367 24.93927
## 34 Quadrat.9 0.9997135 250 Extrapolation 0 17.570917 2.741150 32.40068
## 35 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.321051 13.67895
## 36 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.511881 14.48812
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.2973023 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5198756 4.083254
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4270147 2.515529
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.4650226 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2868992 3.916231
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.2017042 3.074567
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.7461779 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5896706 7.879011
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6807108 5.517152
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5389477 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.2894474 9.404727
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3422188 7.818344
## 13 Quadrat.3 Species richness 14.000000 23.977578 5.6626736 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2454475 5.499096
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1763882 4.165377
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.7919557 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3071753 5.906232
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3448295 4.148948
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.9986391 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4423722 4.402208
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2430334 2.297080
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.3767418 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1624795 4.038614
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1311020 3.452289
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.9527346 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3651740 5.861648
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3052201 4.253236
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.7573640 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.2988757 5.760832
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2182457 3.956987
## 31 Quadrat.9 Species richness 16.000000 17.580488 5.9614548 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.3443674 6.834233
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 1.0241384 3.788537
## UCL
## 1 14.998842
## 2 6.121128
## 3 4.189396
## 4 16.823356
## 5 5.040855
## 6 3.865233
## 7 14.462482
## 8 10.190477
## 9 8.185489
## 10 15.056318
## 11 10.539340
## 12 9.159817
## 13 35.076215
## 14 6.461233
## 15 4.856806
## 16 25.876755
## 17 7.110337
## 18 5.500655
## 19 29.693904
## 20 6.136275
## 21 3.249753
## 22 23.068558
## 23 4.675522
## 24 3.966199
## 25 23.644474
## 26 7.293104
## 27 5.449677
## 28 17.693786
## 29 6.932403
## 30 4.812495
## 31 29.264725
## 32 12.104056
## 33 7.803086
w <- c(155)
Barrow_Dataw <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance", size = w)
Barrow_Dataw
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 131 Rarefaction 0 9.992424 8.695526 11.289323 0.9924242
## 2 Quadrat.1 132 Observed 0 10.000000 8.696294 11.303706 0.9925382
## 3 Quadrat.1 133 Extrapolation 0 10.007462 8.695654 11.319270 0.9926504
## 4 Quadrat.1 155 Extrapolation 0 10.146009 8.643606 11.648413 0.9947338
## 5 Quadrat.2 155 Rarefaction 0 13.106420 12.458401 13.754438 0.9904352
## 6 Quadrat.2 443 Rarefaction 0 14.000000 13.240213 14.759787 1.0000000
## 7 Quadrat.2 444 Observed 0 14.000000 13.239362 14.760638 1.0000000
## 8 Quadrat.2 445 Extrapolation 0 14.000000 13.238943 14.761057 1.0000000
## 9 Quadrat.3 155 Rarefaction 0 10.541638 9.106706 11.976571 0.9857132
## 10 Quadrat.3 445 Rarefaction 0 13.988789 10.639355 17.338223 0.9887892
## 11 Quadrat.3 446 Observed 0 14.000000 10.644498 17.355502 0.9888018
## 12 Quadrat.3 447 Extrapolation 0 14.011198 10.649392 17.373004 0.9888144
## 13 Quadrat.4 155 Rarefaction 0 10.355688 8.584070 12.127307 0.9863965
## 14 Quadrat.4 293 Rarefaction 0 11.989796 9.259418 14.720174 0.9897959
## 15 Quadrat.4 294 Observed 0 12.000000 9.263489 14.736511 0.9898191
## 16 Quadrat.4 295 Extrapolation 0 12.010181 9.266866 14.753496 0.9898422
## 17 Quadrat.5 155 Rarefaction 0 16.331555 14.299797 18.363312 0.9634357
## 18 Quadrat.5 276 Rarefaction 0 18.989170 16.563589 21.414750 0.9891697
## 19 Quadrat.5 277 Observed 0 19.000000 16.570651 21.429349 0.9892989
## 20 Quadrat.5 278 Extrapolation 0 19.010701 16.577213 21.444190 0.9894266
## 21 Quadrat.6 155 Rarefaction 0 7.227255 5.871147 8.583364 0.9868378
## 22 Quadrat.6 463 Rarefaction 0 9.993534 7.055190 12.931879 0.9935345
## 23 Quadrat.6 464 Observed 0 10.000000 7.056989 12.943011 0.9935438
## 24 Quadrat.6 465 Extrapolation 0 10.006456 7.058635 12.954278 0.9935531
## 25 Quadrat.7 155 Rarefaction 0 12.027598 10.282365 13.772831 0.9746475
## 26 Quadrat.7 327 Rarefaction 0 14.990854 12.454161 17.527546 0.9908537
## 27 Quadrat.7 328 Observed 0 15.000000 12.459596 17.540404 0.9909460
## 28 Quadrat.7 329 Extrapolation 0 15.009054 12.464940 17.553168 0.9910373
## 29 Quadrat.8 155 Rarefaction 0 12.140675 11.126374 13.154975 0.9856570
## 30 Quadrat.8 427 Rarefaction 0 13.997664 12.474622 15.520705 0.9976636
## 31 Quadrat.8 428 Observed 0 14.000000 12.474606 15.525394 0.9976852
## 32 Quadrat.8 429 Extrapolation 0 14.002315 12.474345 15.530284 0.9977067
## 33 Quadrat.9 81 Rarefaction 0 15.951220 13.437313 18.465126 0.9512195
## 34 Quadrat.9 82 Observed 0 16.000000 13.476626 18.523374 0.9526800
## 35 Quadrat.9 83 Extrapolation 0 16.047320 13.514516 18.580124 0.9540968
## 36 Quadrat.9 155 Extrapolation 0 17.408663 13.980185 20.837142 0.9948556
## 37 Quadrat.10 155 Rarefaction 0 9.074264 7.506763 10.641764 0.9878047
## 38 Quadrat.10 249 Rarefaction 0 9.992000 8.012531 11.971469 0.9920000
## 39 Quadrat.10 250 Observed 0 10.000000 8.016577 11.983423 0.9920320
## 40 Quadrat.10 251 Extrapolation 0 10.007968 8.019910 11.996026 0.9920639
## 41 Quadrat.11 155 Observed 0 13.000000 12.026842 13.973158 1.0000000
## SC.LCL SC.UCL
## 1 0.9779629 1.0000000
## 2 0.9770094 1.0000000
## 3 0.9772245 1.0000000
## 4 0.9812761 1.0000000
## 5 0.9872402 0.9936303
## 6 0.9976003 1.0000000
## 7 0.9980155 1.0000000
## 8 0.9980251 1.0000000
## 9 0.9774012 0.9940252
## 10 0.9814917 0.9960868
## 11 0.9812198 0.9963838
## 12 0.9812360 0.9963928
## 13 0.9773546 0.9954383
## 14 0.9814661 0.9981257
## 15 0.9808782 0.9987600
## 16 0.9809106 0.9987738
## 17 0.9535134 0.9733579
## 18 0.9796777 0.9986616
## 19 0.9794939 0.9991040
## 20 0.9796167 0.9992365
## 21 0.9798301 0.9938455
## 22 0.9879099 0.9991591
## 23 0.9877825 0.9993050
## 24 0.9877940 0.9993121
## 25 0.9666424 0.9826526
## 26 0.9838809 0.9978264
## 27 0.9839747 0.9979172
## 28 0.9840676 0.9980071
## 29 0.9809112 0.9904029
## 30 0.9927150 1.0000000
## 31 0.9925519 1.0000000
## 32 0.9925820 1.0000000
## 33 0.9222419 0.9801971
## 34 0.9235046 0.9818554
## 35 0.9247401 0.9834534
## 36 0.9700469 1.0000000
## 37 0.9800279 0.9955815
## 38 0.9843644 0.9996356
## 39 0.9838338 1.0000000
## 40 0.9838972 1.0000000
## 41 0.9916229 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.9924242 130 Rarefaction 0 9.986034 7.064949 12.90712
## 2 Quadrat.1 0.9925382 132 Observed 0 10.000000 7.069014 12.93099
## 3 Quadrat.1 0.9926504 133 Extrapolation 0 10.007462 7.066843 12.94808
## 4 Quadrat.1 0.9947338 155 Extrapolation 0 10.146009 7.007678 13.28434
## 5 Quadrat.2 0.9904352 155 Rarefaction 0 13.106420 12.404361 13.80848
## 6 Quadrat.2 1.0000000 444 Observed 0 14.000000 13.053105 14.94690
## 7 Quadrat.3 0.9857132 155 Rarefaction 0 10.541638 6.494726 14.58855
## 8 Quadrat.3 0.9887892 444 Rarefaction 0 13.977826 8.269653 19.68600
## 9 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.281113 19.71889
## 10 Quadrat.3 0.9888144 447 Extrapolation 0 14.011198 8.284662 19.73773
## 11 Quadrat.4 0.9863965 155 Rarefaction 0 10.355688 5.482831 15.22855
## 12 Quadrat.4 0.9897959 292 Rarefaction 0 11.982627 6.294369 17.67088
## 13 Quadrat.4 0.9898191 294 Observed 0 12.000000 6.305573 17.69443
## 14 Quadrat.4 0.9898422 295 Extrapolation 0 12.010181 6.314028 17.70633
## 15 Quadrat.5 0.9634357 155 Rarefaction 0 16.331556 13.817995 18.84512
## 16 Quadrat.5 0.9891697 275 Rarefaction 0 18.983073 14.434789 23.53136
## 17 Quadrat.5 0.9892989 277 Observed 0 19.000000 14.422996 23.57700
## 18 Quadrat.5 0.9894266 278 Extrapolation 0 19.010701 14.404024 23.61738
## 19 Quadrat.6 0.9868378 155 Rarefaction 0 7.227255 4.221262 10.23325
## 20 Quadrat.6 0.9935345 462 Rarefaction 0 9.990245 4.120163 15.86033
## 21 Quadrat.6 0.9935438 464 Observed 0 10.000000 4.125824 15.87418
## 22 Quadrat.6 0.9935531 465 Extrapolation 0 10.006456 4.128596 15.88432
## 23 Quadrat.7 0.9746475 155 Rarefaction 0 12.027598 9.528768 14.52643
## 24 Quadrat.7 0.9908537 327 Rarefaction 0 14.988227 10.440059 19.53640
## 25 Quadrat.7 0.9909460 328 Observed 0 15.000000 10.435116 19.56488
## 26 Quadrat.7 0.9910373 329 Extrapolation 0 15.009054 10.427323 19.59078
## 27 Quadrat.8 0.9856570 155 Rarefaction 0 12.140675 10.746101 13.53525
## 28 Quadrat.8 0.9976636 427 Rarefaction 0 13.996602 11.067266 16.92594
## 29 Quadrat.8 0.9976852 428 Observed 0 14.000000 11.064252 16.93575
## 30 Quadrat.8 0.9977067 429 Extrapolation 0 14.002315 11.060211 16.94442
## 31 Quadrat.9 0.9512195 80 Rarefaction 0 15.914285 12.299945 19.52862
## 32 Quadrat.9 0.9526800 82 Observed 0 16.000000 12.336471 19.66353
## 33 Quadrat.9 0.9540968 83 Extrapolation 0 16.047320 12.329791 19.76485
## 34 Quadrat.9 0.9948556 155 Extrapolation 0 17.408663 11.286735 23.53059
## 35 Quadrat.10 0.9878047 155 Rarefaction 0 9.074264 6.830563 11.31796
## 36 Quadrat.10 0.9920000 248 Rarefaction 0 9.984021 7.313180 12.65486
## 37 Quadrat.10 0.9920320 250 Observed 0 10.000000 7.325065 12.67493
## 38 Quadrat.10 0.9920639 251 Extrapolation 0 10.007968 7.329724 12.68621
## 39 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.598378 14.40162
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.2561562 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4640066 4.192755
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3862962 2.595336
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.7950325 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2613053 3.966394
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1620526 3.152282
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.7836735 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5357821 7.984630
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6021744 5.671080
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5760499 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3362341 9.313027
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.4105082 7.684499
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.8416410 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.3066422 5.379157
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.2128449 4.093924
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.0185781 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3544242 5.813626
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3277835 4.182357
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.3048179 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4450238 4.397011
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2278280 2.326882
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.8429959 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1438021 4.075221
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1228808 3.468402
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.5015268 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3048819 5.979819
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.2783197 4.305960
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.2850085 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3135531 5.732065
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2364864 3.921236
## 31 Quadrat.9 Species richness 16.000000 17.580488 7.2358566 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.0672787 7.377317
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.7924440 4.242650
## UCL
## 1 14.918197
## 2 6.011627
## 3 4.109589
## 4 17.470163
## 5 4.990692
## 6 3.787517
## 7 14.535972
## 8 10.084857
## 9 8.031560
## 10 15.129037
## 11 10.631040
## 12 9.293662
## 13 37.386948
## 14 6.581172
## 15 4.928260
## 16 24.360962
## 17 7.202943
## 18 5.467245
## 19 28.334039
## 20 6.141472
## 21 3.219951
## 22 23.982399
## 23 4.638915
## 24 3.950086
## 25 24.720087
## 26 7.174934
## 27 5.396953
## 28 18.727950
## 29 6.961170
## 30 4.848246
## 31 31.762506
## 32 11.560972
## 33 7.348973
#Now to run the analysis again without specificying the size, can do this for #looking at the other diversity indices#
Barrow_Data <- iNEXT(Barrow_Nos, q=c(0), datatype= "abundance")
Barrow_Data
## Compare 11 assemblages with Hill number order q = 0.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 1 Rarefaction 0 1.000000 1.000000 1.000000
## 10 Quadrat.1 66 Rarefaction 0 8.947705 7.656016 10.239394
## 20 Quadrat.1 132 Observed 0 10.000000 8.166515 11.833485
## 30 Quadrat.1 195 Extrapolation 0 10.305180 7.903144 12.707217
## 40 Quadrat.1 264 Extrapolation 0 10.429060 7.513656 13.344463
## 41 Quadrat.2 1 Rarefaction 0 1.000000 1.000000 1.000000
## 50 Quadrat.2 222 Rarefaction 0 13.580553 12.839038 14.322069
## 60 Quadrat.2 444 Observed 0 14.000000 13.179849 14.820151
## 70 Quadrat.2 654 Extrapolation 0 14.000000 13.071452 14.928548
## 80 Quadrat.2 888 Extrapolation 0 14.000000 13.013573 14.986427
## 81 Quadrat.3 1 Rarefaction 0 1.000000 1.000000 1.000000
## 90 Quadrat.3 223 Rarefaction 0 11.437408 9.519248 13.355568
## 100 Quadrat.3 446 Observed 0 14.000000 10.901025 17.098975
## 110 Quadrat.3 657 Extrapolation 0 16.104927 11.936731 20.273124
## 120 Quadrat.3 892 Extrapolation 0 17.930966 12.598141 23.263792
## 121 Quadrat.4 1 Rarefaction 0 1.000000 1.000000 1.000000
## 130 Quadrat.4 147 Rarefaction 0 10.245584 8.527400 11.963769
## 140 Quadrat.4 294 Observed 0 12.000000 9.123811 14.876189
## 150 Quadrat.4 433 Extrapolation 0 13.214789 9.233928 17.195649
## 160 Quadrat.4 588 Extrapolation 0 14.185662 9.116923 19.254401
## 161 Quadrat.5 1 Rarefaction 0 1.000000 1.000000 1.000000
## 170 Quadrat.5 138 Rarefaction 0 15.659111 13.495305 17.822916
## 180 Quadrat.5 277 Observed 0 19.000000 16.149823 21.850177
## 190 Quadrat.5 408 Extrapolation 0 19.710680 16.032181 23.389178
## 200 Quadrat.5 554 Extrapolation 0 19.864504 15.213994 24.515015
## 201 Quadrat.6 1 Rarefaction 0 1.000000 1.000000 1.000000
## 210 Quadrat.6 232 Rarefaction 0 8.122676 6.201739 10.043614
## 220 Quadrat.6 464 Observed 0 10.000000 6.975019 13.024981
## 230 Quadrat.6 684 Extrapolation 0 11.218394 7.206702 15.230086
## 240 Quadrat.6 928 Extrapolation 0 12.187115 7.191028 17.183201
## 241 Quadrat.7 1 Rarefaction 0 1.000000 1.000000 1.000000
## 250 Quadrat.7 164 Rarefaction 0 12.252127 10.728355 13.775899
## 260 Quadrat.7 328 Observed 0 15.000000 12.768457 17.231543
## 270 Quadrat.7 483 Extrapolation 0 15.710963 12.651768 18.770159
## 280 Quadrat.7 656 Extrapolation 0 15.865031 11.852503 19.877560
## 281 Quadrat.8 1 Rarefaction 0 1.000000 1.000000 1.000000
## 290 Quadrat.8 214 Rarefaction 0 12.838973 11.614452 14.063493
## 300 Quadrat.8 428 Observed 0 14.000000 12.320031 15.679969
## 310 Quadrat.8 631 Extrapolation 0 14.211841 11.924231 16.499451
## 320 Quadrat.8 856 Extrapolation 0 14.244805 11.318865 17.170745
## 321 Quadrat.9 1 Rarefaction 0 1.000000 1.000000 1.000000
## 330 Quadrat.9 41 Rarefaction 0 12.426486 10.277345 14.575626
## 340 Quadrat.9 82 Observed 0 16.000000 13.106148 18.893852
## 350 Quadrat.9 121 Extrapolation 0 17.097502 13.379878 20.815126
## 360 Quadrat.9 164 Extrapolation 0 17.449789 12.861350 22.038228
## 361 Quadrat.10 1 Rarefaction 0 1.000000 1.000000 1.000000
## 370 Quadrat.10 125 Rarefaction 0 8.660186 7.639906 9.680466
## 380 Quadrat.10 250 Observed 0 10.000000 8.269913 11.730087
## 390 Quadrat.10 368 Extrapolation 0 10.750659 8.285304 13.216013
## 400 Quadrat.10 500 Extrapolation 0 11.260652 8.190726 14.330579
## 401 Quadrat.11 1 Rarefaction 0 1.000000 1.000000 1.000000
## 410 Quadrat.11 77 Rarefaction 0 12.378716 11.533344 13.224088
## 420 Quadrat.11 155 Observed 0 13.000000 12.154434 13.845566
## 430 Quadrat.11 228 Extrapolation 0 13.000000 11.913419 14.086581
## 440 Quadrat.11 310 Extrapolation 0 13.000000 11.712202 14.287798
## SC SC.LCL SC.UCL
## 1 0.2982882 0.2327390 0.3638375
## 10 0.9681311 0.9517969 0.9844652
## 20 0.9925382 0.9760952 1.0000000
## 30 0.9971273 0.9856450 1.0000000
## 40 0.9989902 0.9911339 1.0000000
## 41 0.1177984 0.1084460 0.1271508
## 50 0.9949676 0.9919067 0.9980284
## 60 1.0000000 0.9979085 1.0000000
## 70 1.0000000 0.9992532 1.0000000
## 80 1.0000000 0.9997411 1.0000000
## 81 0.2216758 0.1971644 0.2461872
## 90 0.9876404 0.9806405 0.9946402
## 100 0.9888018 0.9822644 0.9953392
## 110 0.9911643 0.9848924 0.9974361
## 120 0.9932137 0.9877432 0.9986842
## 121 0.2072624 0.1783220 0.2362028
## 130 0.9861074 0.9763933 0.9958216
## 140 0.9898191 0.9794623 1.0000000
## 150 0.9925768 0.9836802 1.0000000
## 160 0.9947809 0.9874565 1.0000000
## 161 0.3605661 0.2905734 0.4305588
## 170 0.9576645 0.9466981 0.9686309
## 180 0.9892989 0.9780918 1.0000000
## 190 0.9977796 0.9872041 1.0000000
## 200 0.9996152 0.9911036 1.0000000
## 201 0.2695967 0.2502231 0.2889704
## 210 0.9896514 0.9832642 0.9960386
## 220 0.9935438 0.9876695 0.9994181
## 230 0.9952956 0.9900954 1.0000000
## 240 0.9966884 0.9924148 1.0000000
## 241 0.2061237 0.1789891 0.2332583
## 250 0.9755530 0.9678620 0.9832439
## 260 0.9909460 0.9825606 0.9993314
## 270 0.9981202 0.9902620 1.0000000
## 280 0.9996748 0.9930703 1.0000000
## 281 0.2280636 0.2026137 0.2535136
## 290 0.9902972 0.9861617 0.9944326
## 300 0.9976852 0.9925157 1.0000000
## 310 0.9996513 0.9956443 1.0000000
## 320 0.9999572 0.9970805 1.0000000
## 321 0.1725384 0.1079280 0.2371488
## 330 0.8625042 0.8273320 0.8976764
## 340 0.9526800 0.9184619 0.9868981
## 350 0.9855393 0.9540274 1.0000000
## 360 0.9960869 0.9711345 1.0000000
## 361 0.2881928 0.2611913 0.3151943
## 370 0.9843510 0.9755099 0.9931920
## 380 0.9920320 0.9830970 1.0000000
## 390 0.9950346 0.9885216 1.0000000
## 400 0.9970746 0.9925076 1.0000000
## 401 0.1459573 0.1119581 0.1799564
## 410 0.9750464 0.9653581 0.9847348
## 420 1.0000000 0.9904775 1.0000000
## 430 1.0000000 0.9951756 1.0000000
## 440 1.0000000 0.9974217 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL
## 1 Quadrat.1 0.2982883 1 Rarefaction 0 1.000000 0.8922561
## 10 Quadrat.1 0.9681311 66 Rarefaction 0 8.947706 7.1080639
## 20 Quadrat.1 0.9925382 132 Observed 0 10.000000 6.5501053
## 30 Quadrat.1 0.9971273 195 Extrapolation 0 10.305180 6.4404560
## 40 Quadrat.1 0.9989902 264 Extrapolation 0 10.429060 6.3841169
## 41 Quadrat.2 0.1177984 1 Rarefaction 0 1.000000 0.9625929
## 45 Quadrat.2 0.9824284 99 Rarefaction 0 12.373961 11.5415635
## 50 Quadrat.2 0.9949676 222 Rarefaction 0 13.580553 12.7610713
## 55 Quadrat.2 0.9986248 344 Rarefaction 0 13.937856 13.0093869
## 59 Quadrat.2 1.0000000 444 Observed 0 14.000000 12.9804069
## 60 Quadrat.3 0.2216778 1 Rarefaction 0 1.000008 0.9428810
## 69 Quadrat.3 0.9876404 223 Rarefaction 0 11.437408 7.0378219
## 79 Quadrat.3 0.9888018 446 Observed 0 14.000000 8.7361818
## 89 Quadrat.3 0.9911643 657 Extrapolation 0 16.104927 9.5384569
## 99 Quadrat.3 0.9932137 892 Extrapolation 0 17.930966 10.2394980
## 100 Quadrat.4 0.2072643 1 Rarefaction 0 1.000009 0.9135270
## 109 Quadrat.4 0.9861074 147 Rarefaction 0 10.245584 4.7534404
## 119 Quadrat.4 0.9898191 294 Observed 0 12.000000 5.2801712
## 129 Quadrat.4 0.9925768 433 Extrapolation 0 13.214789 5.5912769
## 139 Quadrat.4 0.9947809 588 Extrapolation 0 14.185662 5.8816955
## 140 Quadrat.5 0.3605678 1 Rarefaction 0 1.000005 0.8915794
## 149 Quadrat.5 0.9576645 138 Rarefaction 0 15.659111 12.6468209
## 159 Quadrat.5 0.9892989 277 Observed 0 19.000000 13.0498163
## 169 Quadrat.5 0.9977796 408 Extrapolation 0 19.710680 11.0427098
## 179 Quadrat.5 0.9996152 554 Extrapolation 0 19.864504 10.5548045
## 180 Quadrat.6 0.2695998 1 Rarefaction 0 1.000010 0.9658912
## 189 Quadrat.6 0.9896514 232 Rarefaction 0 8.122676 3.4079486
## 199 Quadrat.6 0.9935438 464 Observed 0 10.000000 3.7867528
## 209 Quadrat.6 0.9952956 684 Extrapolation 0 11.218394 4.2013529
## 219 Quadrat.6 0.9966884 928 Extrapolation 0 12.187115 4.5393565
## 220 Quadrat.7 0.2061237 1 Rarefaction 0 1.000000 0.9265955
## 229 Quadrat.7 0.9755530 164 Rarefaction 0 12.252126 10.0027063
## 239 Quadrat.7 0.9909460 328 Observed 0 15.000000 9.7135338
## 249 Quadrat.7 0.9981202 483 Extrapolation 0 15.710963 7.9366508
## 259 Quadrat.7 0.9996748 656 Extrapolation 0 15.865031 7.5000236
## 260 Quadrat.8 0.2280665 1 Rarefaction 0 1.000012 0.9243263
## 269 Quadrat.8 0.9902972 214 Rarefaction 0 12.838973 11.0924382
## 279 Quadrat.8 0.9976852 428 Observed 0 14.000000 10.2705590
## 289 Quadrat.8 0.9996513 631 Extrapolation 0 14.211841 9.7615478
## 299 Quadrat.8 0.9999572 856 Extrapolation 0 14.244805 9.6763416
## 300 Quadrat.9 0.1725400 1 Rarefaction 0 1.000009 0.7943619
## 309 Quadrat.9 0.8625042 41 Rarefaction 0 12.426484 9.3668616
## 319 Quadrat.9 0.9526800 82 Observed 0 16.000000 11.3457857
## 329 Quadrat.9 0.9855393 121 Extrapolation 0 17.097502 10.0410621
## 339 Quadrat.9 0.9960869 164 Extrapolation 0 17.449789 9.4913951
## 340 Quadrat.10 0.2881978 1 Rarefaction 0 1.000015 0.9498723
## 349 Quadrat.10 0.9843510 125 Rarefaction 0 8.660186 6.6944024
## 359 Quadrat.10 0.9920320 250 Observed 0 10.000000 6.8814495
## 369 Quadrat.10 0.9950346 368 Extrapolation 0 10.750659 7.1539985
## 379 Quadrat.10 0.9970746 500 Extrapolation 0 11.260652 7.3562137
## 380 Quadrat.11 0.1459599 1 Rarefaction 0 1.000017 0.9125645
## 384 Quadrat.11 0.9059712 35 Rarefaction 0 10.147477 9.0645129
## 389 Quadrat.11 0.9750465 77 Rarefaction 0 12.378716 11.5826806
## 394 Quadrat.11 0.9953552 120 Rarefaction 0 12.931952 11.6822208
## 398 Quadrat.11 1.0000000 155 Observed 0 13.000000 11.4298870
## qD.UCL
## 1 1.107744
## 10 10.787348
## 20 13.449895
## 30 14.169905
## 40 14.474002
## 41 1.037407
## 45 13.206359
## 50 14.400036
## 55 14.866326
## 59 15.019593
## 60 1.057136
## 69 15.836994
## 79 19.263818
## 89 22.671398
## 99 25.622435
## 100 1.086490
## 109 15.737728
## 119 18.719829
## 129 20.838300
## 139 22.489628
## 140 1.108430
## 149 18.671400
## 159 24.950184
## 169 28.378649
## 179 29.174204
## 180 1.034129
## 189 12.837403
## 199 16.213247
## 209 18.235436
## 219 19.834873
## 220 1.073404
## 229 14.501547
## 239 20.286466
## 249 23.485276
## 259 24.230039
## 260 1.075697
## 269 14.585507
## 279 17.729441
## 289 18.662134
## 299 18.813268
## 300 1.205656
## 309 15.486107
## 319 20.654214
## 329 24.153942
## 339 25.408183
## 340 1.050159
## 349 10.625970
## 359 13.118550
## 369 14.347319
## 379 15.165091
## 380 1.087470
## 384 11.230441
## 389 13.174752
## 394 14.181683
## 398 14.570113
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 2.3850907 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.4292502 4.260876
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.3481884 2.670025
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.5974803 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2856456 3.918688
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1879033 3.101616
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.7504134 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.6018994 7.855043
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6847334 5.509268
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.5529829 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3016387 9.380833
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.3600348 7.783425
## 13 Quadrat.3 Species richness 14.000000 23.977578 6.1678866 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2610931 5.468432
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1810451 4.156250
## 16 Quadrat.4 Species richness 12.000000 16.484694 4.7704787 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3934683 5.737101
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3686884 4.102185
## 19 Quadrat.5 Species richness 19.000000 19.896751 3.5850087 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4200738 4.445912
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.1927577 2.395618
## 22 Quadrat.6 Species richness 10.000000 14.490302 4.7693830 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.1691627 4.025516
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1260705 3.462150
## 25 Quadrat.7 Species richness 15.000000 15.897256 4.2998167 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3853552 5.822094
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3403663 4.184351
## 28 Quadrat.8 Species richness 14.000000 14.249416 2.1488251 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3229622 5.713623
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2487748 3.897151
## 31 Quadrat.9 Species richness 16.000000 17.580488 4.2883041 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1347160 7.245142
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.8596140 4.110999
## UCL
## 1 15.170904
## 2 5.943506
## 3 4.034899
## 4 17.082968
## 5 5.038398
## 6 3.838183
## 7 14.470783
## 8 10.214445
## 9 8.193373
## 10 15.083827
## 11 10.563235
## 12 9.194736
## 13 36.066414
## 14 6.491898
## 15 4.865934
## 16 25.834660
## 17 7.279468
## 18 5.547417
## 19 26.923239
## 20 6.092571
## 21 3.151215
## 22 23.838121
## 23 4.688621
## 24 3.956338
## 25 24.324742
## 26 7.332659
## 27 5.518562
## 28 18.461036
## 29 6.979612
## 30 4.872331
## 31 25.985409
## 32 11.693147
## 33 7.480624
Barrow_Data_1 <- iNEXT(Barrow_Nos, q=c(1), datatype = "abundance")
Barrow_Data_1
## Compare 11 assemblages with Hill number order q = 1.
## $class: iNEXT
##
## $DataInfo: basic data information
## Assemblage n S.obs SC f1 f2 f3 f4 f5 f6 f7 f8 f9 f10
## 1 Quadrat.1 132 10 0.9925 1 1 1 3 0 0 0 1 0 0
## 2 Quadrat.2 444 14 1.0000 0 1 1 0 1 1 0 0 0 0
## 3 Quadrat.3 446 14 0.9888 5 0 0 1 0 0 0 0 0 1
## 4 Quadrat.4 294 12 0.9898 3 1 0 0 0 0 0 1 1 0
## 5 Quadrat.5 277 19 0.9893 3 5 4 1 0 1 0 1 0 0
## 6 Quadrat.6 464 10 0.9935 3 1 1 0 0 0 0 1 0 0
## 7 Quadrat.7 328 15 0.9909 3 5 0 0 0 0 0 0 0 2
## 8 Quadrat.8 428 14 0.9977 1 2 1 0 1 0 1 0 0 0
## 9 Quadrat.9 82 16 0.9527 4 5 2 1 1 1 0 0 0 0
## 10 Quadrat.10 250 10 0.9920 2 1 0 0 3 0 0 0 0 1
## 11 Quadrat.11 155 13 1.0000 0 1 1 3 1 2 0 0 0 0
##
## $iNextEst: diversity estimates with rarefied and extrapolated samples.
## $size_based (LCL and UCL are obtained for fixed size.)
##
## Assemblage m Method Order.q qD qD.LCL qD.UCL SC
## 1 Quadrat.1 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2982882
## 10 Quadrat.1 66 Rarefaction 1 4.711402 3.921457 5.501346 0.9681311
## 20 Quadrat.1 132 Observed 1 4.909318 4.067852 5.750783 0.9925382
## 30 Quadrat.1 195 Extrapolation 1 4.984681 4.122228 5.847134 0.9971273
## 40 Quadrat.1 264 Extrapolation 1 5.033897 4.157575 5.910219 0.9989902
## 41 Quadrat.2 1 Rarefaction 1 1.000000 1.000000 1.000000 0.1177984
## 50 Quadrat.2 222 Rarefaction 1 9.669129 9.122265 10.215993 0.9949676
## 60 Quadrat.2 444 Observed 1 9.824330 9.268105 10.380556 1.0000000
## 70 Quadrat.2 654 Extrapolation 1 9.880874 9.322178 10.439570 1.0000000
## 80 Quadrat.2 888 Extrapolation 1 9.918790 9.358318 10.479262 1.0000000
## 81 Quadrat.3 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2216758
## 90 Quadrat.3 223 Rarefaction 1 5.727900 5.211360 6.244439 0.9876404
## 100 Quadrat.3 446 Observed 1 5.827336 5.289357 6.365315 0.9888018
## 110 Quadrat.3 657 Extrapolation 1 5.874481 5.325157 6.423805 0.9911643
## 120 Quadrat.3 892 Extrapolation 1 5.910085 5.351190 6.468980 0.9932137
## 121 Quadrat.4 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2072624
## 130 Quadrat.4 147 Rarefaction 1 6.194376 5.440031 6.948721 0.9861074
## 140 Quadrat.4 294 Observed 1 6.330739 5.548344 7.113134 0.9898191
## 150 Quadrat.4 433 Extrapolation 1 6.390793 5.596872 7.184714 0.9925768
## 160 Quadrat.4 588 Extrapolation 1 6.434143 5.632138 7.236147 0.9947809
## 161 Quadrat.5 1 Rarefaction 1 1.000000 1.000000 1.000000 0.3605661
## 170 Quadrat.5 138 Rarefaction 1 4.870478 4.038941 5.702015 0.9576645
## 180 Quadrat.5 277 Observed 1 5.076505 4.199599 5.953412 0.9892989
## 190 Quadrat.5 408 Extrapolation 1 5.154233 4.261007 6.047460 0.9977796
## 200 Quadrat.5 554 Extrapolation 1 5.204554 4.300288 6.108821 0.9996152
## 201 Quadrat.6 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2695967
## 210 Quadrat.6 232 Rarefaction 1 4.240210 3.982401 4.498019 0.9896514
## 220 Quadrat.6 464 Observed 1 4.290540 4.019183 4.561897 0.9935438
## 230 Quadrat.6 684 Extrapolation 1 4.312906 4.035305 4.590506 0.9952956
## 240 Quadrat.6 928 Extrapolation 1 4.329034 4.046806 4.611262 0.9966884
## 241 Quadrat.7 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2061237
## 250 Quadrat.7 164 Rarefaction 1 6.248599 5.560854 6.936343 0.9755530
## 260 Quadrat.7 328 Observed 1 6.415378 5.699481 7.131275 0.9909460
## 270 Quadrat.7 483 Extrapolation 1 6.481166 5.755018 7.207314 0.9981202
## 280 Quadrat.7 656 Extrapolation 1 6.523592 5.790471 7.256713 0.9996748
## 281 Quadrat.8 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2280636
## 290 Quadrat.8 214 Rarefaction 1 6.136662 5.440501 6.832823 0.9902972
## 300 Quadrat.8 428 Observed 1 6.244415 5.530409 6.958422 0.9976852
## 310 Quadrat.8 631 Extrapolation 1 6.284788 5.564795 7.004781 0.9996513
## 320 Quadrat.8 856 Extrapolation 1 6.311195 5.587330 7.035060 0.9999572
## 321 Quadrat.9 1 Rarefaction 1 1.000000 1.000000 1.000000 0.1725384
## 330 Quadrat.9 41 Rarefaction 1 7.494984 5.889311 9.100657 0.8625042
## 340 Quadrat.9 82 Observed 1 8.450869 6.590900 10.310837 0.9526800
## 350 Quadrat.9 121 Extrapolation 1 8.851415 6.883456 10.819375 0.9855393
## 360 Quadrat.9 164 Extrapolation 1 9.113130 7.066330 11.159930 0.9960869
## 361 Quadrat.10 1 Rarefaction 1 1.000000 1.000000 1.000000 0.2881928
## 370 Quadrat.10 125 Rarefaction 1 4.280396 3.845903 4.714889 0.9843510
## 380 Quadrat.10 250 Observed 1 4.373262 3.920399 4.826125 0.9920320
## 390 Quadrat.10 368 Extrapolation 1 4.411537 3.950423 4.872651 0.9950346
## 400 Quadrat.10 500 Extrapolation 1 4.438123 3.971056 4.905191 0.9970746
## 401 Quadrat.11 1 Rarefaction 1 1.000000 1.000000 1.000000 0.1459573
## 410 Quadrat.11 77 Rarefaction 1 8.296187 7.140050 9.452323 0.9750464
## 420 Quadrat.11 155 Observed 1 8.680817 7.474640 9.886995 1.0000000
## 430 Quadrat.11 228 Extrapolation 1 8.816410 7.596746 10.036073 1.0000000
## 440 Quadrat.11 310 Extrapolation 1 8.907843 7.679613 10.136073 1.0000000
## SC.LCL SC.UCL
## 1 0.2334533 0.3631232
## 10 0.9537737 0.9824884
## 20 0.9767280 1.0000000
## 30 0.9873397 1.0000000
## 40 0.9925591 1.0000000
## 41 0.1082851 0.1273117
## 50 0.9919946 0.9979405
## 60 0.9972181 1.0000000
## 70 0.9987739 1.0000000
## 80 0.9994415 1.0000000
## 81 0.2010594 0.2422923
## 90 0.9806151 0.9946656
## 100 0.9820820 0.9955217
## 110 0.9844174 0.9979111
## 120 0.9871302 0.9992972
## 121 0.1709736 0.2435513
## 130 0.9788268 0.9933880
## 140 0.9818329 0.9978053
## 150 0.9854384 0.9997153
## 160 0.9891243 1.0000000
## 161 0.3007667 0.4203655
## 170 0.9459039 0.9694251
## 180 0.9786716 0.9999262
## 190 0.9889313 1.0000000
## 200 0.9930042 1.0000000
## 201 0.2522667 0.2869267
## 210 0.9831285 0.9961742
## 220 0.9875066 0.9995809
## 230 0.9895084 1.0000000
## 240 0.9918237 1.0000000
## 241 0.1756629 0.2365844
## 250 0.9675362 0.9835697
## 260 0.9815577 1.0000000
## 270 0.9895143 1.0000000
## 280 0.9925936 1.0000000
## 281 0.1996729 0.2564544
## 290 0.9852271 0.9953672
## 300 0.9924631 1.0000000
## 310 0.9960983 1.0000000
## 320 0.9974908 1.0000000
## 321 0.1169228 0.2281540
## 330 0.8265969 0.8984114
## 340 0.9152016 0.9901585
## 350 0.9491028 1.0000000
## 360 0.9659974 1.0000000
## 361 0.2616146 0.3147710
## 370 0.9747577 0.9939442
## 380 0.9828052 1.0000000
## 390 0.9883481 1.0000000
## 400 0.9921550 1.0000000
## 401 0.1163998 0.1755147
## 410 0.9647490 0.9853439
## 420 0.9895955 1.0000000
## 430 0.9942286 1.0000000
## 440 0.9967320 1.0000000
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$size_based to view complete output.
##
## $coverage_based (LCL and UCL are obtained for fixed coverage; interval length is wider due to varying size in bootstraps.)
##
## Assemblage SC m Method Order.q qD qD.LCL qD.UCL
## 1 Quadrat.1 0.2982883 1 Rarefaction 1 1.000000 0.8807936 1.119207
## 10 Quadrat.1 0.9681311 66 Rarefaction 1 4.711402 3.9027569 5.520047
## 20 Quadrat.1 0.9925382 132 Observed 1 4.909318 4.0450069 5.773629
## 30 Quadrat.1 0.9971273 195 Extrapolation 1 4.984681 4.1005837 5.868778
## 40 Quadrat.1 0.9989902 264 Extrapolation 1 5.033897 4.1371420 5.930652
## 41 Quadrat.2 0.1177984 1 Rarefaction 1 1.000000 0.9614352 1.038565
## 45 Quadrat.2 0.9824284 99 Rarefaction 1 9.293222 8.7616404 9.824804
## 50 Quadrat.2 0.9949676 222 Rarefaction 1 9.669129 9.1347261 10.203533
## 55 Quadrat.2 0.9986248 344 Rarefaction 1 9.779881 9.2452150 10.314546
## 59 Quadrat.2 1.0000000 444 Observed 1 9.824330 9.2862691 10.362392
## 60 Quadrat.3 0.2216778 1 Rarefaction 1 1.000008 0.9473382 1.052677
## 69 Quadrat.3 0.9876404 223 Rarefaction 1 5.727900 5.1195516 6.336247
## 79 Quadrat.3 0.9888018 446 Observed 1 5.827336 5.2145339 6.440138
## 89 Quadrat.3 0.9911643 657 Extrapolation 1 5.874481 5.2626577 6.486304
## 99 Quadrat.3 0.9932137 892 Extrapolation 1 5.910085 5.3017449 6.518425
## 100 Quadrat.4 0.2072643 1 Rarefaction 1 1.000008 0.9222092 1.077807
## 109 Quadrat.4 0.9861074 147 Rarefaction 1 6.194376 5.3885820 7.000170
## 119 Quadrat.4 0.9898191 294 Observed 1 6.330739 5.5068609 7.154617
## 129 Quadrat.4 0.9925768 433 Extrapolation 1 6.390793 5.5659608 7.215625
## 139 Quadrat.4 0.9947809 588 Extrapolation 1 6.434143 5.6190780 7.249207
## 140 Quadrat.5 0.3605678 1 Rarefaction 1 1.000004 0.9048495 1.095158
## 149 Quadrat.5 0.9576645 138 Rarefaction 1 4.870478 4.0335423 5.707414
## 159 Quadrat.5 0.9892989 277 Observed 1 5.076505 4.2032950 5.949716
## 169 Quadrat.5 0.9977796 408 Extrapolation 1 5.154233 4.2537352 6.054732
## 179 Quadrat.5 0.9996152 554 Extrapolation 1 5.204554 4.2949871 6.114122
## 180 Quadrat.6 0.2695998 1 Rarefaction 1 1.000009 0.9736950 1.026323
## 189 Quadrat.6 0.9896514 232 Rarefaction 1 4.240210 3.9276114 4.552809
## 199 Quadrat.6 0.9935438 464 Observed 1 4.290540 3.9875847 4.593495
## 209 Quadrat.6 0.9952956 684 Extrapolation 1 4.312906 4.0147306 4.611081
## 219 Quadrat.6 0.9966884 928 Extrapolation 1 4.329034 4.0354641 4.622604
## 220 Quadrat.7 0.2061237 1 Rarefaction 1 1.000000 0.9203793 1.079621
## 229 Quadrat.7 0.9755530 164 Rarefaction 1 6.248599 5.5245448 6.972652
## 239 Quadrat.7 0.9909460 328 Observed 1 6.415378 5.6969890 7.133768
## 249 Quadrat.7 0.9981202 483 Extrapolation 1 6.481166 5.7422386 7.220094
## 259 Quadrat.7 0.9996748 656 Extrapolation 1 6.523592 5.7809792 7.266206
## 260 Quadrat.8 0.2280665 1 Rarefaction 1 1.000011 0.9311113 1.068910
## 269 Quadrat.8 0.9902972 214 Rarefaction 1 6.136662 5.4407132 6.832612
## 279 Quadrat.8 0.9976852 428 Observed 1 6.244415 5.5390242 6.949807
## 289 Quadrat.8 0.9996513 631 Extrapolation 1 6.284788 5.5694941 7.000082
## 299 Quadrat.8 0.9999572 856 Extrapolation 1 6.311195 5.5904609 7.031929
## 300 Quadrat.9 0.1725400 1 Rarefaction 1 1.000008 0.8638712 1.136146
## 309 Quadrat.9 0.8625042 41 Rarefaction 1 7.494984 5.8536946 9.136273
## 319 Quadrat.9 0.9526800 82 Observed 1 8.450869 6.4705386 10.431199
## 329 Quadrat.9 0.9855393 121 Extrapolation 1 8.851415 6.6948462 11.007985
## 339 Quadrat.9 0.9960869 164 Extrapolation 1 9.113130 6.9265304 11.299730
## 340 Quadrat.10 0.2881978 1 Rarefaction 1 1.000014 0.9631573 1.036870
## 349 Quadrat.10 0.9843510 125 Rarefaction 1 4.280396 3.8352040 4.725588
## 359 Quadrat.10 0.9920320 250 Observed 1 4.373262 3.9045908 4.841932
## 369 Quadrat.10 0.9950346 368 Extrapolation 1 4.411537 3.9361369 4.886937
## 379 Quadrat.10 0.9970746 500 Extrapolation 1 4.438123 3.9584210 4.917826
## 380 Quadrat.11 0.1459599 1 Rarefaction 1 1.000017 0.8814945 1.118539
## 384 Quadrat.11 0.9059712 35 Rarefaction 1 7.431555 6.3996984 8.463411
## 389 Quadrat.11 0.9750465 77 Rarefaction 1 8.296187 7.2449690 9.347404
## 394 Quadrat.11 0.9953552 120 Rarefaction 1 8.573161 7.4956503 9.650671
## 398 Quadrat.11 1.0000000 155 Observed 1 8.680817 7.5805254 9.781109
##
## NOTE: The above output only shows five estimates for each assemblage; call iNEXT.object$iNextEst$coverage_based to view complete output.
##
## $AsyEst: asymptotic diversity estimates along with related statistics.
## Assemblage Diversity Observed Estimator s.e. LCL
## 1 Quadrat.1 Species richness 10.000000 10.496212 1.9751829 10.000000
## 2 Quadrat.1 Shannon diversity 4.909318 5.102191 0.5492630 4.025655
## 3 Quadrat.1 Simpson diversity 3.293762 3.352462 0.4133880 2.542237
## 4 Quadrat.10 Species richness 10.000000 11.992000 2.5911508 10.000000
## 5 Quadrat.10 Shannon diversity 4.373262 4.478543 0.2512438 3.986114
## 6 Quadrat.10 Simpson diversity 3.435954 3.469900 0.1646133 3.147264
## 7 Quadrat.11 Species richness 13.000000 13.000000 0.7983692 13.000000
## 8 Quadrat.11 Shannon diversity 8.680817 9.034744 0.5985121 7.861682
## 9 Quadrat.11 Simpson diversity 6.602088 6.851320 0.6289252 5.618650
## 10 Quadrat.2 Species richness 14.000000 14.000000 0.6937526 14.000000
## 11 Quadrat.2 Shannon diversity 9.824330 9.972034 0.3444015 9.297019
## 12 Quadrat.2 Simpson diversity 8.348268 8.489081 0.4041832 7.696896
## 13 Quadrat.3 Species richness 14.000000 23.977578 5.5031369 14.000000
## 14 Quadrat.3 Shannon diversity 5.827336 5.980165 0.2668678 5.457113
## 15 Quadrat.3 Simpson diversity 4.475856 4.511092 0.1899260 4.138844
## 16 Quadrat.4 Species richness 12.000000 16.484694 3.6328049 12.000000
## 17 Quadrat.4 Shannon diversity 6.330739 6.508285 0.3279960 5.865424
## 18 Quadrat.4 Simpson diversity 4.762839 4.824801 0.3512690 4.136327
## 19 Quadrat.5 Species richness 19.000000 19.896751 4.3534544 19.000000
## 20 Quadrat.5 Shannon diversity 5.076505 5.269242 0.4083239 4.468942
## 21 Quadrat.5 Simpson diversity 2.755773 2.773417 0.2062539 2.369166
## 22 Quadrat.6 Species richness 10.000000 14.490302 6.1673528 10.000000
## 23 Quadrat.6 Shannon diversity 4.290540 4.357068 0.2009661 3.963182
## 24 Quadrat.6 Simpson diversity 3.687712 3.709244 0.1334574 3.447672
## 25 Quadrat.7 Species richness 15.000000 15.897256 3.6532038 15.000000
## 26 Quadrat.7 Shannon diversity 6.415378 6.577376 0.3403591 5.910285
## 27 Quadrat.7 Simpson diversity 4.795151 4.851456 0.3149454 4.234175
## 28 Quadrat.8 Species richness 14.000000 14.249416 1.9895651 14.000000
## 29 Quadrat.8 Shannon diversity 6.244415 6.346618 0.3424294 5.675468
## 30 Quadrat.8 Simpson diversity 4.350337 4.384741 0.2664147 3.862578
## 31 Quadrat.9 Species richness 16.000000 17.580488 8.3038108 16.000000
## 32 Quadrat.9 Shannon diversity 8.450869 9.469144 1.1909444 7.134936
## 33 Quadrat.9 Simpson diversity 5.475570 5.795812 0.9047340 4.022565
## UCL
## 1 14.367499
## 2 6.178727
## 3 4.162688
## 4 17.070562
## 5 4.970972
## 6 3.792536
## 7 14.564775
## 8 10.207806
## 9 8.083991
## 10 15.359730
## 11 10.647048
## 12 9.281265
## 13 34.763529
## 14 6.503216
## 15 4.883340
## 16 23.604861
## 17 7.151145
## 18 5.513276
## 19 28.429365
## 20 6.069542
## 21 3.177667
## 22 26.578091
## 23 4.750955
## 24 3.970816
## 25 23.057404
## 26 7.244468
## 27 5.468738
## 28 18.148892
## 29 7.017767
## 30 4.906904
## 31 33.855658
## 32 11.803352
## 33 7.569058
#Now to look at further things, such as sample coverage#
Barrowout1 <- estimateD(Barrow_Nos, q = c(0,1,2), datatype = "abundance", base="size")
Barrowout1
## Assemblage m Method Order.q SC qD qD.LCL qD.UCL
## 1 Quadrat.1 164 Extrapolation 0 0.9954051 10.190652 8.379289 12.002016
## 2 Quadrat.1 164 Extrapolation 1 0.9954051 4.952234 4.036187 5.868281
## 3 Quadrat.1 164 Extrapolation 2 0.9954051 3.305054 2.557407 4.052700
## 4 Quadrat.2 164 Rarefaction 0 0.9912442 13.189205 12.437678 13.940733
## 5 Quadrat.2 164 Rarefaction 1 0.9912442 9.559224 8.965611 10.152837
## 6 Quadrat.2 164 Rarefaction 2 0.9912442 8.118355 7.425163 8.811547
## 7 Quadrat.3 164 Rarefaction 0 0.9861054 10.668601 9.179210 12.157992
## 8 Quadrat.3 164 Rarefaction 1 0.9861054 5.668334 5.190690 6.145977
## 9 Quadrat.3 164 Rarefaction 2 0.9861054 4.416538 4.057216 4.775859
## 10 Quadrat.4 164 Rarefaction 0 0.9866832 10.476948 8.879937 12.073959
## 11 Quadrat.4 164 Rarefaction 1 0.9866832 6.220335 5.680025 6.760645
## 12 Quadrat.4 164 Rarefaction 2 0.9866832 4.714842 4.109221 5.320463
## 13 Quadrat.5 164 Rarefaction 0 0.9662006 16.649438 14.699859 18.599017
## 14 Quadrat.5 164 Rarefaction 1 0.9662006 4.932905 4.197933 5.667877
## 15 Quadrat.5 164 Rarefaction 2 0.9662006 2.743747 2.341058 3.146436
## 16 Quadrat.6 164 Rarefaction 0 0.9872702 7.343957 5.991921 8.695993
## 17 Quadrat.6 164 Rarefaction 1 0.9872702 4.205418 3.925436 4.485400
## 18 Quadrat.6 164 Rarefaction 2 0.9872702 3.648964 3.441775 3.856153
## 19 Quadrat.7 164 Rarefaction 0 0.9755530 12.252127 10.436649 14.067605
## 20 Quadrat.7 164 Rarefaction 1 0.9755530 6.248599 5.595939 6.901259
## 21 Quadrat.7 164 Rarefaction 2 0.9755530 4.740137 4.135879 5.344395
## 22 Quadrat.8 164 Rarefaction 0 0.9865650 12.266054 11.190108 13.342000
## 23 Quadrat.8 164 Rarefaction 1 0.9865650 6.073900 5.500525 6.647275
## 24 Quadrat.8 164 Rarefaction 2 0.9865650 4.296076 3.853152 4.738999
## 25 Quadrat.9 164 Extrapolation 0 0.9960869 17.449789 11.828216 23.071362
## 26 Quadrat.9 164 Extrapolation 1 0.9960869 9.113130 6.586498 11.639763
## 27 Quadrat.9 164 Extrapolation 2 0.9960869 5.631141 3.936827 7.325456
## 28 Quadrat.10 164 Rarefaction 0 0.9884901 9.181189 7.527466 10.834911
## 29 Quadrat.10 164 Rarefaction 1 0.9884901 4.322982 3.789468 4.856496
## 30 Quadrat.10 164 Rarefaction 2 0.9884901 3.418417 3.053613 3.783221
## 31 Quadrat.11 164 Extrapolation 0 1.0000000 13.000000 12.082853 13.917147
## 32 Quadrat.11 164 Extrapolation 1 1.0000000 8.701280 7.614743 9.787817
## 33 Quadrat.11 164 Extrapolation 2 1.0000000 6.615295 5.480026 7.750563
Barrowout2 <- estimateD(Barrow_Nos, q = c(0,1,2), datatype = "abundance", base="coverage")
Barrowout2
## Assemblage m Method Order.q SC qD qD.LCL
## 1 Quadrat.1 138.2628 Extrapolation 0 0.9932137 10.044922 7.296962
## 2 Quadrat.1 138.2628 Extrapolation 1 0.9932137 4.918588 4.086009
## 3 Quadrat.1 138.2628 Extrapolation 2 0.9932137 3.296376 2.674176
## 4 Quadrat.2 190.4990 Rarefaction 0 0.9932137 13.394898 12.444257
## 5 Quadrat.2 190.4990 Rarefaction 1 0.9932137 9.617527 9.041586
## 6 Quadrat.2 190.4990 Rarefaction 2 0.9932137 8.167971 7.562417
## 7 Quadrat.3 892.0000 Extrapolation 0 0.9932137 17.930966 8.808126
## 8 Quadrat.3 892.0000 Extrapolation 1 0.9932137 5.910085 5.439717
## 9 Quadrat.3 892.0000 Extrapolation 2 0.9932137 4.493405 4.208018
## 10 Quadrat.4 472.4666 Extrapolation 0 0.9932137 13.495319 7.108766
## 11 Quadrat.4 472.4666 Extrapolation 1 0.9932137 6.403789 5.643227
## 12 Quadrat.4 472.4666 Extrapolation 2 0.9932137 4.786056 3.994126
## 13 Quadrat.5 314.9374 Extrapolation 0 0.9932137 19.328057 13.621787
## 14 Quadrat.5 314.9374 Extrapolation 1 0.9932137 5.103273 4.271975
## 15 Quadrat.5 314.9374 Extrapolation 2 0.9932137 2.757887 2.303609
## 16 Quadrat.6 431.6331 Rarefaction 0 0.9932137 9.785694 4.127144
## 17 Quadrat.6 431.6331 Rarefaction 1 0.9932137 4.286286 3.934105
## 18 Quadrat.6 431.6331 Rarefaction 2 0.9932137 3.686107 3.433440
## 19 Quadrat.7 356.4264 Extrapolation 0 0.9932137 15.224732 10.590174
## 20 Quadrat.7 356.4264 Extrapolation 1 0.9932137 6.430142 5.766078
## 21 Quadrat.7 356.4264 Extrapolation 2 0.9932137 4.799593 4.174515
## 22 Quadrat.8 274.3834 Rarefaction 0 0.9932137 13.332443 10.478515
## 23 Quadrat.8 274.3834 Rarefaction 1 0.9932137 6.183540 5.477202
## 24 Quadrat.8 274.3834 Rarefaction 2 0.9932137 4.331310 3.805793
## 25 Quadrat.9 145.8877 Extrapolation 0 0.9932137 17.353825 4.380603
## 26 Quadrat.9 145.8877 Extrapolation 1 0.9932137 9.020112 6.429659
## 27 Quadrat.9 145.8877 Extrapolation 2 0.9932137 5.611348 3.951338
## 28 Quadrat.10 290.0508 Extrapolation 0 0.9932137 10.295420 7.233127
## 29 Quadrat.10 290.0508 Extrapolation 1 0.9932137 4.388231 3.941277
## 30 Quadrat.10 290.0508 Extrapolation 2 0.9932137 3.440602 3.113739
## 31 Quadrat.11 111.6350 Rarefaction 0 0.9932137 12.883437 11.289129
## 32 Quadrat.11 111.6350 Rarefaction 1 0.9932137 8.536622 7.374565
## 33 Quadrat.11 111.6350 Rarefaction 2 0.9932137 6.510090 5.291681
## qD.UCL
## 1 12.792882
## 2 5.751167
## 3 3.918576
## 4 14.345540
## 5 10.193468
## 6 8.773526
## 7 27.053807
## 8 6.380453
## 9 4.778792
## 10 19.881873
## 11 7.164351
## 12 5.577987
## 13 25.034328
## 14 5.934572
## 15 3.212164
## 16 15.444244
## 17 4.638467
## 18 3.938775
## 19 19.859290
## 20 7.094206
## 21 5.424672
## 22 16.186372
## 23 6.889879
## 24 4.856828
## 25 30.327046
## 26 11.610566
## 27 7.271358
## 28 13.357712
## 29 4.835185
## 30 3.767464
## 31 14.477745
## 32 9.698680
## 33 7.728498
#Looking at species evenness using the vegan package#
H <- diversity(Barrow_Nos)
Bevenness <- H/log(specnumber(Barrow_Nos))
summary(Bevenness)
## Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
## 0.1435 0.6500 0.7629 0.7022 0.8691 1.0000 22
H1 <- diversity(Barrow_Nos$Quadrat.1)
Bevenness1 <- H1/log(specnumber(Barrow_Nos$Quadrat.1))
summary(Bevenness1)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.691 0.691 0.691 0.691 0.691 0.691
H2 <- diversity(Barrow_Nos$Quadrat.2)
Bevenness2 <- H2/log(specnumber(Barrow_Nos$Quadrat.2))
summary(Bevenness2)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.8658 0.8658 0.8658 0.8658 0.8658 0.8658
H3 <- diversity(Barrow_Nos$Quadrat.3)
Bevenness3 <- H3/log(specnumber(Barrow_Nos$Quadrat.3))
summary(Bevenness3)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.6679 0.6679 0.6679 0.6679 0.6679 0.6679
H4 <- diversity(Barrow_Nos$Quadrat.4)
Bevenness4 <- H4/log(specnumber(Barrow_Nos$Quadrat.4))
summary(Bevenness4)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.7427 0.7427 0.7427 0.7427 0.7427 0.7427
H5 <- diversity(Barrow_Nos$Quadrat.5)
Bevenness5 <- H5/log(specnumber(Barrow_Nos$Quadrat.5))
summary(Bevenness5)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.5518 0.5518 0.5518 0.5518 0.5518 0.5518
H6 <- diversity(Barrow_Nos$Quadrat.6)
Bevenness6 <- H6/log(specnumber(Barrow_Nos$Quadrat.6))
summary(Bevenness6)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.6325 0.6325 0.6325 0.6325 0.6325 0.6325
H7 <- diversity(Barrow_Nos$Quadrat.7)
Bevenness7 <- H7/log(specnumber(Barrow_Nos$Quadrat.7))
summary(Bevenness7)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.6864 0.6864 0.6864 0.6864 0.6864 0.6864
H8 <- diversity(Barrow_Nos$Quadrat.8)
Bevenness8 <- H8/log(specnumber(Barrow_Nos$Quadrat.8))
summary(Bevenness8)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.6941 0.6941 0.6941 0.6941 0.6941 0.6941
H9 <- diversity(Barrow_Nos$Quadrat.9)
Bevenness9 <- H9/log(specnumber(Barrow_Nos$Quadrat.9))
summary(Bevenness9)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.7698 0.7698 0.7698 0.7698 0.7698 0.7698
H10 <- diversity(Barrow_Nos$Quadrat.10)
Bevenness10 <- H10/log(specnumber(Barrow_Nos$Quadrat.10))
summary(Bevenness10)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.6408 0.6408 0.6408 0.6408 0.6408 0.6408
H11 <- diversity(Barrow_Nos$Quadrat.11)
Bevenness11 <- H11/log(specnumber(Barrow_Nos$Quadrat.11))
summary(Bevenness11)
## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.8426 0.8426 0.8426 0.8426 0.8426 0.8426
##Now to generate graphs to better visually examine species curves etc##
Barrow_Data_Graph1 <- ggiNEXT(x = Barrow_Data, se=TRUE, type = 1,
facet.var = "None", grey=TRUE)
## Scale for fill is already present.
## Adding another scale for fill, which will replace the existing scale.
## Scale for colour is already present.
## Adding another scale for colour, which will replace the existing scale.
Barrow_Data_Graph1
## Warning: The shape palette can deal with a maximum of 6 discrete values because
## more than 6 becomes difficult to discriminate; you have 11. Consider
## specifying shapes manually if you must have them.
## Warning: Removed 5 rows containing missing values (`geom_point()`).
g7 <- Barrow_Data_Graph1 + theme_hc(style = "darkunica") +
scale_colour_hc("darkunica")
## Scale for colour is already present.
## Adding another scale for colour, which will replace the existing scale.
g7
## Warning: The shape palette can deal with a maximum of 6 discrete values because
## more than 6 becomes difficult to discriminate; you have 11. Consider
## specifying shapes manually if you must have them.
## Warning: Removed 5 rows containing missing values (`geom_point()`).
Barrow_Data_Graph2 <- ggiNEXT(x = Barrow_Data, se=TRUE, type = 1,
facet.var="None", grey= TRUE)
## Scale for fill is already present.
## Adding another scale for fill, which will replace the existing scale.
## Scale for colour is already present.
## Adding another scale for colour, which will replace the existing scale.
Barrow_Data_Graph2
## Warning: The shape palette can deal with a maximum of 6 discrete values because
## more than 6 becomes difficult to discriminate; you have 11. Consider
## specifying shapes manually if you must have them.
## Warning: Removed 5 rows containing missing values (`geom_point()`).
plot(Barrow_Data, type=1)
Barrow_Data_Graph3 <- ggiNEXT(x = Barrow_Data, se=TRUE, type = 2,
facet.var="None", grey = TRUE)
## Scale for fill is already present.
## Adding another scale for fill, which will replace the existing scale.
## Scale for colour is already present.
## Adding another scale for colour, which will replace the existing scale.
Barrow_Data_Graph3
## Warning: The shape palette can deal with a maximum of 6 discrete values because
## more than 6 becomes difficult to discriminate; you have 11. Consider
## specifying shapes manually if you must have them.
## Warning: Removed 5 rows containing missing values (`geom_point()`).
plot(Barrow_Data, type=2)
Barrow_Data_Graph4 <- ggiNEXT(x = Barrow_Data, se=TRUE, type = 3,
facet.var="None", grey= TRUE)
## Scale for fill is already present.
## Adding another scale for fill, which will replace the existing scale.
## Scale for colour is already present.
## Adding another scale for colour, which will replace the existing scale.
Barrow_Data_Graph4
## Warning: The shape palette can deal with a maximum of 6 discrete values because
## more than 6 becomes difficult to discriminate; you have 11. Consider
## specifying shapes manually if you must have them.
## Warning: Removed 5 rows containing missing values (`geom_point()`).
plot(Barrow_Data, type=3)