Commit edd44354 authored by P-A Bouttier's avatar P-A Bouttier
Browse files

Add phyloregion r package

parent 88ffc800
......@@ -266,4 +266,100 @@
"Estimating time to the common ancestor for a beneficial allele")
(description
"This package uses carriers and non-carriers of a beneficial mutation to estimate the time to the common ancester.")
(license #f))))
\ No newline at end of file
(license #f))))
(define-public r-clustmixtype
(package
(name "r-clustmixtype")
(version "0.2-15")
(source
(origin
(method url-fetch)
(uri (cran-uri "clustMixType" version))
(sha256
(base32 "1m43xhqc7jcdj1h5nlp0daz99s1nfss7rwwjn7qqf1hvscblyp3s"))))
(properties `((upstream-name . "clustMixType")))
(build-system r-build-system)
(propagated-inputs (list r-rcolorbrewer r-tibble))
(home-page "https://cran.r-project.org/package=clustMixType")
(synopsis "k-Prototypes Clustering for Mixed Variable-Type Data")
(description
"This package provides functions to perform k-prototypes partitioning clustering
for mixed variable-type data according to Z.Huang (1998): Extensions to the
k-Means Algorithm for Clustering Large Data Sets with Categorical Variables,
Data Mining and Knowledge Discovery 2, 283-304, <DOI:10.1023/A:1009769707641>.")
(license gpl2+)))
(define-public r-betapart
(package
(name "r-betapart")
(version "1.5.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "betapart" version))
(sha256
(base32 "1m2rykch2vhh90s08s9s2kmmrxhp9ik32s5zkdw8991cbw2j7n68"))))
(properties `((upstream-name . "betapart")))
(build-system r-build-system)
(propagated-inputs
(list r-ape
r-dosnow
r-fastmatch
r-foreach
r-geometry
r-itertools
r-picante
r-rcdd
r-snow))
(home-page "https://cran.r-project.org/package=betapart")
(synopsis
"Partitioning Beta Diversity into Turnover and Nestedness Components")
(description
"This package provides functions to compute pair-wise dissimilarities (distance
matrices) and multiple-site dissimilarities, separating the turnover and
nestedness-resultant components of taxonomic (incidence and abundance based),
functional and phylogenetic beta diversity.")
(license gpl2+)))
(define-public r-phyloregion
(package
(name "r-phyloregion")
(version "1.0.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "phyloregion" version))
(sha256
(base32 "161pjy66vhpjwc4h9q4jiqpyzn0v4nawx8ahspjpc7a376rk5552"))))
(properties `((upstream-name . "phyloregion")))
(build-system r-build-system)
(propagated-inputs
(list r-ape
r-betapart
r-clustmixtype
r-colorspace
r-dismo
r-igraph
r-matrix
r-phangorn
r-randomforest
r-raster
r-rgdal
r-rgeos
r-sp
r-vegan))
(native-inputs (list r-knitr))
(home-page "https://github.com/darunabas/phyloregion")
(synopsis "Biogeographic Regionalization and Macroecology")
(description
"Computational infrastructure for biogeography, community ecology, and
biodiversity conservation (Daru et al. 2020) <doi:10.1111/2041-210X.13478>. It
is based on the methods described in Daru et al. (2020)
<doi:10.1038/s41467-020-15921-6>. The original conceptual work is described in
Daru et al. (2017) <doi:10.1016/j.tree.2017.08.013> on patterns and processes of
biogeographical regionalization. Additionally, the package contains fast and
efficient functions to compute more standard conservation measures such as
phylogenetic diversity, phylogenetic endemism, evolutionary distinctiveness and
global endangerment, as well as compositional turnover (e.g., beta diversity).")
(license agpl3+)))
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