Package: phyloregion 1.0.9

Barnabas H. Daru

phyloregion: Biogeographic Regionalization and Macroecology

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).

Authors:Barnabas H. Daru [aut, cre, cph], Piyal Karunarathne [aut], Klaus Schliep [aut], Xiaobei Zhao [ctb], Albin Sandelin [ctb], Luciano Pataro [ctb]

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phyloregion.pdf |phyloregion.html✨
phyloregion/json (API)
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Bug tracker:https://github.com/darunabas/phyloregion/issues

On CRAN:

61 exports 17 stars 2.44 score 76 dependencies 1 dependents 1 mentions 54 scripts 400 downloads

Last updated 7 months agofrom:5ae04da3c5. Checks:OK: 3 NOTE: 4. Indexed: no.

Exports:arc_labelsbackgbeta_corebeta_disschoroplethcoldspotscollapse_rangecountsdense2longdense2sparsedirpathEDGEevol_distinctfishnetfitgomfunctional_betaget_cladeshexcolshotspotsindicatorsinfomaplong2denselong2sparsemap_traitmatch_phylo_commMatrixmean_distnodepieoptimal_phyloregionPDPD_sesphylo_endemismphylobetaphylobeta_corephylobeta_sesphylobuilderphyloregionplot_NMDSplot_pieplot.phyloregionplot.sparsepoints2commpolys2commrandom_speciesrandpointsrast_hotspotrast_quantilerast2commread.communityRPDsdmselect_linkageselectbylocationsparse2densesparse2longsparseMatrixtext_NMDStimeslicetree_samplerunifracweighted_endemism

Dependencies:abindapebetapartclassclassIntcliclusterclustMixTypecodetoolscolorspacecombinatcpp11DBIdigestdoSNOWdplyre1071fansifarverfastmatchforeachgenericsgeometryggplot2ggseqlogogluegtableigraphisobanditeratorsitertoolsKernSmoothlabelinglatticelifecyclelinproglpSolvemagicmagrittrmaptpxMASSMatrixmgcvminpack.lmmunsellnlmepermutephangornpicantepillarpkgconfigpredictsproxyquadprogR6rcddRColorBrewerRcppRcppProgressrlangs2scalessfslamsmoothrsnowterratibbletidyselectunitsutf8vctrsveganviridisLitewithrwk