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 8 months ago
ecological-modelsecologyraritytraits
7.90 score 17 stars 1 packages 257 scripts 434 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 12 days ago
reproducible-researchresearch-compendium
6.77 score 39 stars 20 scripts 782 downloads
forcis - An R Client to Access the FORCIS Database
Provides an interface to the FORCIS database (<https://zenodo.org/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 1 months ago
5.84 score 3 stars 5 scripts
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 4 months ago
functional-biogeography
5.62 score 10 stars 8 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 1 years ago
connectivity-matrixdirected-networksneighborhoodnetworkone-dimensional-networksspatial-networkstwo-dimensional-networksundirected-networks
4.78 score 4 stars 181 downloadsrutils - A Collection of R Functions
A collection of R functions commonly used in FRB-CESAB projects.
Last updated 12 months ago
miscellaneous
4.60 score 2 stars 396 scripts
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 10 months ago
animalbayesiancountspopulationprecisiontemporal-trend
4.30 score 1 stars 191 downloadszoteror - Handle Zotero Local Database
Makes a connection to the (local) Zotero database (SQLite) to extract bibliographic references metadata.
Last updated 2 months ago
databasereferenceszotero
3.95 score 6 stars 5 scriptsworldpa - 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 4 years ago
protected-areasprotected-planetshapefilespatialworld
3.85 score 14 stars 1 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)', and 'foo::bar()' and adds these dependencies in the DESCRIPTION file in the sections Depends, Imports, and Suggests.
Last updated 10 months ago
3.40 score 1 stars 1 scripts 132 downloadsrbibtools - Toolbox to Handle BibTeX Files
Imports, cleans, and exports BibTeX references exported by references management softwares (e.g. Mendeley, Zotero).
Last updated 2 months ago
bibtex
3.18 score 3 starsgeoparser - Detect Country Names in Documents
Detects country names in PDF documents imported with the package 'pdftools'.
Last updated 2 years ago
text-miningworld-countries
2.70 score 4 scripts 36 downloadsrsendinblue - R Client for the SENDINBLUE API
Provides an R client for the sendinblue API <https://developers.sendinblue.com>.
Last updated 4 years ago
mailing-listsendinblue-api
2.70 scorerwoslite - R Client for WOS Lite API
R Client for the WOS Lite API.
Last updated 2 years ago
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 1 years ago
curlzenodo
2.18 score 3 stars