Package: sprex 1.4.2

Eric Archer

sprex: Species Richness and Extrapolation

Functions for calculating species richness for rarefaction and extrapolation, primarily non-parametric species richness such as jackknife, Chao1, and ACE. Also available are functions for plotting species richness and extrapolation curves, and computing standard diversity and entropy indices.

Authors:Eric Archer [aut, cre]

sprex_1.4.2.tar.gz
sprex_1.4.2.zip(r-4.7)sprex_1.4.2.zip(r-4.6)sprex_1.4.2.zip(r-4.5)
sprex_1.4.2.tgz(r-4.6-any)sprex_1.4.2.tgz(r-4.5-any)
sprex_1.4.2.tar.gz(r-4.7-any)sprex_1.4.2.tar.gz(r-4.6-any)
sprex_1.4.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
sprex/json (API)

# Install 'sprex' in R:

install.packages('sprex', repos = c('https://swfsc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ericarcher/sprex/issues

Datasets:

osa.old.growth - Osa beetle species counts
osa.second.growth - Osa beetle species counts

On CRAN:

2.85 score 1 stars 14 scripts 194 downloads 17 exports 68 dependencies

Last updated from:247d763a82. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	129
source / vignettes	OK	201
linux-release-x86_64	OK	130
macos-release-arm64	OK	126
macos-oldrel-arm64	OK	231
windows-devel	OK	82
windows-release	OK	66
windows-oldrel	OK	113
wasm-release	OK	115

Exports:ACE bootstrap.assemblage Chao1 Clench discovery.curve diversity expand.freqs expected.num.species f.stats iChao1 jack1 jack2 num.samples.required rarefaction.overlap sample.to.species.freq species.to.sample.freq Swor1

Dependencies:abind class classInt cli clue cluster cpp11 DBI deldir dplyr e1071 farver fBasics generics ggplot2 ggrepel glue gss gtable HDInterval igraph isoband KernSmooth kknn labeling lattice lifecycle magrittr MASS Matrix modeest pillar pkgconfig polyclip proxy purrr R6 RColorBrewer Rcpp rlang rmutil rpart s2 S7 scales sf spatial spatstat.data spatstat.geom spatstat.univar spatstat.utils stable stabledist statip stringi stringr swfscMisc tibble tidyr tidyselect timeDate timeSeries units utf8 vctrs viridisLite withr wk

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Calculate species richness and extrapolation metrics	sprex-package sprex
Number of Unobserved Species	ACE Chao1 Clench f0 iChao1 jack1 jack2 Swor1
Bootstrap Assemblage of Species	bootstrap.assemblage
Discovery Curve	discovery.curve
Diversity Indices	diversity
Expand Frequency Matrix	expand.freqs
Expected Number of Species	expected.num.species
Frequency Vector Statistics	f.stats
Number of Samples Required	num.samples.required
Osa beetle species counts	osa.old.growth osa.second.growth
Rarefaction Overlap	rarefaction.overlap
Create Vector of Species Frequencies	sample.to.species.freq
Create Vector of Sample Frequencies	species.to.sample.freq