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Open Sustainable Technology

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funrar

A package to compute functional rarity indices, it quantifies how species are rare both from a functional and an extent point of view.
https://github.com/Rekyt/funrar

Category: Biosphere
Sub Category: Biodiversity Analysis and Metrics

Keywords

ecological-models ecology r r-package rarity traits

Keywords from Contributors

functional-trait tidy-data parallelization

Last synced: less than a minute ago
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Repository metadata

:package: R package to compute functional rarity indices (functional distinctiveness, uniqueness, restrictedness, scarcity)

README.md

funrar - Computing Functional rarity indices

R-CMD-check
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DOI

funrar is a package to compute functional rarity indices, it quantifies how species are rare both from a functional and an extent point of view. Following the different facets of rarity proposed by Rabinowitz (1981). See this reference for more details on Functional Rarity indices:

Violle C., Thuiller W., Mouquet N., Munoz F., Kraft NJB, Cadotte MW, Livingstone SW, Mouillot D., Functional Rarity: The Ecology of Outliers, Trends in Ecology & Evolution, Volume 32, Issue 5, May 2017, Pages 356-367, ISSN 0169-5347, https://doi.org/10.1016/j.tree.2017.02.002.

Citation

Please cite the following reference when using funrar in a paper:

Grenié M, Denelle P, Tucker CM, Munoz F, Violle C. funrar: An R package to characterize functional rarity. Divers Distrib. 2017;00:1–7. https://doi.org/10.1111/ddi.12629

or refer to the CITATION file, using:

citation(package = "funrar")

Installation

The package is on CRAN, you can install it using:

install.packages("funrar")

If you want to have the latest development version use remotes:

# install.packages("remotes") # If 'remotes' is not installed yet
remotes::install_github("Rekyt/funrar", build_vignettes = TRUE)

Example vignettes

In addition to code example included in help of functions, two vignettes explain how to use the package. The
functional rarity indices vignette explains
in details the different indices and function provided; while the
sparse matrices vignette shows how to use
sparse matrices to gain speed in memory when computing functional rarity indices.

Access the vignette through R using the vignette() abd browseVignettes() functions.

References

Rabinowitz D., Seven forms of rarity In The Biological Aspects of Rare Plant Conservation (1981), pp. 205-217

Owner metadata

GitHub Events

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Committers metadata

Last synced: 6 days ago

Total Commits: 389
Total Committers: 7
Avg Commits per committer: 55.571
Development Distribution Score (DDS): 0.075

Commits in past year: 0
Committers in past year: 0
Avg Commits per committer in past year: 0.0
Development Distribution Score (DDS) in past year: 0.0

Name Email Commits
Rekyt m****e@e****r 360
Pierre DENELLE p****e@c****r 18
Pierre DENELLE P****E 4
cmtucker c****r 2
Julia Silge j****e@g****m 2
Hugo Gruson B****o 2
Pierre DENELLE d****e@n****r 1

Committer domains:

Issue and Pull Request metadata

Last synced: 1 day ago

Total issues: 46
Total pull requests: 7
Average time to close issues: about 1 year
Average time to close pull requests: 2 days
Total issue authors: 3
Total pull request authors: 3
Average comments per issue: 1.07
Average comments per pull request: 0.86
Merged pull request: 7
Bot issues: 0
Bot pull requests: 0

Past year issues: 1
Past year pull requests: 0
Past year average time to close issues: N/A
Past year average time to close pull requests: N/A
Past year issue authors: 1
Past year pull request authors: 0
Past year average comments per issue: 1.0
Past year average comments per pull request: 0
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/Rekyt/funrar

Top Issue Authors

  • Rekyt (38)
  • cmtucker (6)
  • pierredenelle (2)

Top Pull Request Authors

  • Rekyt (4)
  • Bisaloo (2)
  • juliasilge (1)

Top Issue Labels

  • enhancement (16)
  • bug (5)
  • wontfix (4)
  • question (3)
  • documentation (2)

Top Pull Request Labels

Package metadata

cran.r-project.org: funrar

Functional Rarity Indices Computation

  • Homepage: https://rekyt.github.io/funrar/
  • Documentation: http://cran.r-project.org/web/packages/funrar/funrar.pdf
  • Licenses: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
  • Latest release: 1.5.0 (published over 2 years ago)
  • Last Synced: 2025-04-26T14:02:18.635Z (1 day ago)
  • Versions: 14
  • Dependent Packages: 1
  • Dependent Repositories: 1
  • Downloads: 398 Last month
  • Rankings:
    • Stargazers count: 14.214%
    • Forks count: 21.331%
    • Average: 22.403%
    • Downloads: 24.124%
    • Dependent repos count: 24.382%
    • Dependent packages count: 27.965%
  • Maintainers (1)
conda-forge.org: r-funrar

  • Homepage: https://rekyt.github.io/funrar/
  • Licenses: GPL-2.0-or-later
  • Latest release: 1.5.0 (published over 2 years ago)
  • Last Synced: 2025-04-26T14:02:35.896Z (1 day ago)
  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Rankings:
    • Stargazers count: 49.252%
    • Average: 54.648%
    • Forks count: 60.044%

Dependencies

DESCRIPTION cran
  • R >= 3.2.2 depends
  • cluster * imports
  • methods * imports
  • stats * imports
  • Matrix * suggests
  • ade4 * suggests
  • ggplot2 * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • testthat >= 2.99.0 suggests
  • tidytext * suggests

Score: 10.884310555528323