Package: indicspecies 1.8.0
Miquel De Cáceres
indicspecies: Relationship Between Species and Groups of Sites
Functions to assess the strength and statistical significance of the relationship between species occurrence/abundance and groups of sites [De Caceres & Legendre (2009) <doi:10.1890/08-1823.1>]. Also includes functions to measure species niche breadth using resource categories [De Caceres et al. (2011) <doi:10.1111/J.1600-0706.2011.19679.x>].
Authors:
indicspecies_1.8.0.tar.gz
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indicspecies_1.8.0.tar.gz(r-4.5-noble)indicspecies_1.8.0.tar.gz(r-4.4-noble)
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indicspecies.pdf |indicspecies.html✨
indicspecies/json (API)
NEWS
| # Install 'indicspecies' in R: |
| install.packages('indicspecies', repos = c('https://emf-creaf.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/emf-creaf/indicspecies/issues
Pkgdown site:https://emf-creaf.github.io
- birdsbreed - Birds resource use data
- birdswinter - Birds resource use data
- dfood - Pigeon seed consumption data
- diet.barcelona - Pigeon seed consumption data
- diet.moia - Pigeon seed consumption data
- resourceD - Birds resource use data
- wetland - Wetland vegetation data set
Last updated 1 months agofrom:3d15f35e32. Checks:9 OK. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 22 2025 |
| R-4.5-win | OK | Mar 22 2025 |
| R-4.5-mac | OK | Mar 22 2025 |
| R-4.5-linux | OK | Mar 22 2025 |
| R-4.4-win | OK | Mar 22 2025 |
| R-4.4-mac | OK | Mar 22 2025 |
| R-4.4-linux | OK | Mar 22 2025 |
| R-4.3-win | OK | Mar 22 2025 |
| R-4.3-mac | OK | Mar 22 2025 |
Exports:combinespeciescoverageindicatorsmultipattnichecentroidnichedisplnicheoverlapnicheprefnichevarplot.indicatorsplotcoverageplotnichepredict.indicatorsprint.indicatorspruneindicatorssignassocstrassocsummary.indicatorssummary.multipatt
Dependencies:permute
Indicator species analysis
Rendered fromIndicatorSpeciesAnalysis.Rmdusingknitr::rmarkdownon Mar 22 2025.Last update: 2025-02-20
Started: 2021-06-04
Usage of the niche metric functions (former 'resniche' package)
Rendered fromPigeonExample.Rmdusingknitr::rmarkdownon Mar 22 2025.Last update: 2023-07-19
Started: 2021-06-04
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Birds resource use data | birds birdsbreed birdswinter resourceD |
| Combines species from a community table | combinespecies |
| Coverage of a set of indicators | coverage plotcoverage |
| Indicator analysis for species combinations | indicators plot.indicators print.indicators summary.indicators |
| Multi-level pattern analysis | multipatt |
| Resource niche metrics for a single niche | nichecentroid nichepref nichevar |
| Metrics to compare pairs of resource niches | nichedispl nicheoverlap |
| Pigeon seed consumption data | dfood diet.barcelona diet.moia pigeons |
| Draws a single resource niche | plotniche |
| Predicts site group from indicators | predict.indicators |
| Determines the best subset of indicators | pruneindicators |
| Statistical significance of species site-group associations | signassoc |
| Strength of species site-group associations | strassoc |
| Summarizing multi-level pattern analysis | summary.multipatt |
| Wetland vegetation data set | wetland |
