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:Miquel De Cáceres [aut, cre], Florian Jansen [aut], Sarah Endicott [aut], Noah Dell [aut]

indicspecies_1.8.0.tar.gz
indicspecies_1.8.0.zip(r-4.7)indicspecies_1.8.0.zip(r-4.6)indicspecies_1.8.0.zip(r-4.5)
indicspecies_1.8.0.tgz(r-4.6-any)indicspecies_1.8.0.tgz(r-4.5-any)
indicspecies_1.8.0.tar.gz(r-4.7-any)indicspecies_1.8.0.tar.gz(r-4.6-any)
indicspecies_1.8.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html
DESCRIPTION |NEWS
card.svg |card.png
indicspecies/json (API)

# 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/docs site:https://emf-creaf.github.io

Datasets:

On CRAN:

Conda:

8.31 score 12 stars 524 scripts 3.3k downloads 218 mentions 19 exports 1 dependencies

Last updated from:3d15f35e32. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK135
source / vignettesOK154
linux-release-x86_64OK167
macos-release-arm64OK157
macos-oldrel-arm64OK126
windows-develOK180
windows-releaseOK94
windows-oldrelOK86
wasm-releaseOK100

Exports:combinespeciescoverageindicatorsmultipattnichecentroidnichedisplnicheoverlapnicheprefnichevarplot.indicatorsplotcoverageplotnichepredict.indicatorsprint.indicatorspruneindicatorssignassocstrassocsummary.indicatorssummary.multipatt

Dependencies:permute

Indicator species analysis
Introduction | Data required for indicator species analysis | The community data matrix | Defining the classification of sites | Indicator species analysis using multipatt() | Indicator Value analysis with site group combinations | Displaying the results | Examining the indicator value components | Inspecting the indicator species analysis results for all species | Analyzing species ecological preferences with correlation indices | Excluding site group combinations in multipatt() | Indicator species analysis without site groups combinations | Restricting the order of site groups combinations | Specifying the site groups combinations to be considered | Additional functions to estimate and test the association between species and groups of sites | The function strassoc() | The function signassoc() | Determining how well target site groups are covered by indicators | The function coverage() | The function plotcoverage() | Species combinations as indicators of site groups | Generating species combinations | The function indicators() | Determining the coverage for objects of class indicators() | The function pruneindicators() | The function predict.indicators() | Bibliography

Last update: 2025-02-20
Started: 2021-06-04

Usage of the niche metric functions (former 'resniche' package)
Introduction | Resemblance between diet resources | Resource niche analysis at the population level | Resource use of populations | Niche breadth in populations | Overlap between populations | Resource niche analysis at the individual level | Resource use of individuals | Measuring the degree of individual specialisation | Measuring the degree of overlap between individuals | Bibliography

Last update: 2023-07-19
Started: 2021-06-04