funrar - Functional Rarity Indices Computation
Computes functional rarity indices as proposed by Violle et al. (2017) <doi:10.1016/j.tree.2017.02.002>. Various indices can be computed using both regional and local information. Functional Rarity combines both the functional aspect of rarity as well as the extent aspect of rarity. 'funrar' is presented in Grenié et al. (2017) <doi:10.1111/ddi.12629>.
Last updated
ecological-modelsecologyraritytraits
8.29 score 17 stars 2 dependents 318 scripts 393 downloads
rcompendium - Create a Package or Research Compendium Structure
Makes easier the creation of R package or research compendium (i.e. a predefined files/folders structure) so that users can focus on the code/analysis instead of wasting time organizing files. A full ready-to-work structure is set up with some additional features: version control, remote repository creation, CI/CD configuration (check package integrity under several OS, test code with 'testthat', and build and deploy website using 'pkgdown'). This package heavily relies on the R packages 'devtools' and 'usethis' and follows recommendations made by Wickham H. (2015) <ISBN:9781491910597> and Marwick B. et al. (2018) <doi:10.7287/peerj.preprints.3192v2>.
Last updated
reproducible-researchresearch-compendium
7.11 score 40 stars 27 scripts 843 downloads
forcis - Handle the FORCIS Foraminifera Database
Provides an interface to the 'FORCIS' database (Chaabane et al. (2024) <doi:10.5281/zenodo.7390791>) on global foraminifera distribution. This package allows to download and to handle 'FORCIS' data. It is part of the FRB-CESAB working group FORCIS. <https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/forcis/>.
Last updated
6.93 score 6 stars 13 scripts 514 downloads
funbiogeo - Functional Biogeography Analyses
Helps users with analyses in functional biogeogeography by loading and combining data, computing trait coverage, as well as computing functional diversity indices, drawing maps, correlating them with the environment, and upscaling assemblages.
Last updated
functional-biogeographyfunctional-diversityfunctional-trait
5.86 score 12 stars 24 scriptsrutils - A Collection of R Functions
A collection of R functions commonly used in FRB-CESAB projects.
Last updated
miscellaneous
4.91 score 3 stars 548 scriptschessboard - Create Network Connections Based on Chess Moves
Provides functions to work with directed (asymmetric) and undirected (symmetric) spatial networks. It makes the creation of connectivity matrices easier, i.e. a binary matrix of dimension n x n, where n is the number of nodes (sampling units) indicating the presence (1) or the absence (0) of an edge (link) between pairs of nodes. Different network objects can be produced by 'chessboard': node list, neighbor list, edge list, connectivity matrix. It can also produce objects that will be used later in Moran's Eigenvector Maps (Dray et al. (2006) <doi:10.1016/j.ecolmodel.2006.02.015>) and Asymetric Eigenvector Maps (Blanchet et al. (2008) <doi:10.1016/j.ecolmodel.2008.04.001>), methods available in the package 'adespatial' (Dray et al. (2023) <https://CRAN.R-project.org/package=adespatial>). This work is part of the FRB-CESAB working group Bridge <https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/bridge/>.
Last updated
connectivity-matrixdirected-networksneighborhoodnetworkone-dimensional-networksspatial-networkstwo-dimensional-networksundirected-networks
4.88 score 5 stars 241 downloads
popbayes - Bayesian Model to Estimate Population Trends from Counts Series
Infers the trends of one or several animal populations over time from series of counts. It does so by accounting for count precision (provided or inferred based on expert knowledge, e.g. guesstimates), smoothing the population rate of increase over time, and accounting for the maximum demographic potential of species. Inference is carried out in a Bayesian framework. This work is part of the FRB-CESAB working group AfroBioDrivers <https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/afrobiodrivers/>.
Last updated
animalbayesiancountspopulationprecisiontemporal-trendjagscpp
4.30 score 1 stars 2 scripts 531 downloadsworldpa - An Interface to the World Database on Protected Areas (WDPA)
This package is an interface to the World Database on Protected Areas <https://www.protectedplanet.net> and its API <https://api.protectedplanet.net>. User can download terrestrial and marine protected areas for the world countries (one country at the time).
Last updated
protected-areasprotected-planetshapefilespatialworld
3.85 score 14 stars 1 scriptszoteror - Handle Zotero Local Database
Makes a connection to the (local) Zotero database (SQLite) to extract bibliographic references metadata.
Last updated
databasereferenceszotero
3.48 score 6 stars 5 scripts
rdeps - Identify External Packages Used in a Project
Screens all '.R', '.Rmd', and '.qmd' files to extract the name of packages used in a project. This package detects packages called with 'library(foo)', 'require(foo)', 'foo::bar()' and 'use("foo", "bar")' and adds these dependencies in the DESCRIPTION file in the sections Depends, Imports, and Suggests.
Last updated
3.30 score 4 stars 1 scripts 133 downloadsgeoparser - Detect Country Names in Documents
Detects country names in PDF documents imported with the package 'pdftools'.
Last updated
text-miningworld-countries
2.70 score 4 scripts 5 downloadsrsendinblue - R Client for the SENDINBLUE API
Provides an R client for the sendinblue API <https://developers.sendinblue.com>.
Last updated
mailing-listsendinblue-api
2.70 scorerwoslite - R Client for WOS Lite API
R Client for the WOS Lite API.
Last updated
apiweb-of-science
2.48 score 6 starszenodor - Download Files from a Zenodo Repository
Lists and downloads available files of a Zenodo repository. For restricted repository a token must be provided.
Last updated
curlzenodo
2.18 score 3 stars 3 scripts