Package: hierfstat 0.5-11
hierfstat: Estimation and Tests of Hierarchical F-Statistics
Estimates hierarchical F-statistics from haploid or diploid genetic data with any numbers of levels in the hierarchy, following the algorithm of Yang (Evolution(1998), 52:950). Tests via randomisations the significance of each F and variance components, using the likelihood-ratio statistics G (Goudet et al. (1996) <https://academic.oup.com/genetics/article/144/4/1933/6017091>). Estimates genetic diversity statistics for haploid and diploid genetic datasets in various formats, including inbreeding and coancestry coefficients, and population specific F-statistics following Weir and Goudet (2017) <https://academic.oup.com/genetics/article/206/4/2085/6072590>.
Authors:
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hierfstat.pdf |hierfstat.html✨
hierfstat/json (API)
# Install 'hierfstat' in R: |
install.packages('hierfstat', repos = c('https://zkamvar.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/jgx65/hierfstat/issues
- cont.isl - A genetic dataset from a diploid organism in a continent-island model
- cont.isl99 - A genetic dataset from a diploid organism in a continent-island model
- crocrussula - Genotypes and sex of 140 shrews Crocidura russula
- diploid - A genetic dataset from a diploid organism
- exhier - Example data set with 4 levels, one diploid and one haploid locus
- gtrunchier - Genotypes at 6 microsatellite loci of Galba truncatula from different patches in Western Switzerland
- yangex - Example data set from Yang (1998) appendix
devtoolsfstatisticsgwashierfstatkinshippopulation-geneticspopulation-genomicsquantitative-geneticssimulations
Last updated 1 years agofrom:21a258d812. Checks:OK: 1 ERROR: 6. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Aug 28 2024 |
R-4.5-win | ERROR | Aug 28 2024 |
R-4.5-linux | ERROR | Aug 28 2024 |
R-4.4-win | ERROR | Aug 28 2024 |
R-4.4-mac | ERROR | Aug 28 2024 |
R-4.3-win | ERROR | Aug 28 2024 |
R-4.3-mac | ERROR | Aug 28 2024 |
Exports:AIcallele.countallelic.richnessbasic.statsbeta.dosagebetasbiall2dosboot.ppbetasboot.ppfisboot.ppfstboot.vcfis.dosagefs.dosagefst.dosagefstat2dosg.statsg.stats.globgenet.distgenind2hierfstatgenot2algetalgetal.bgrm2kinshipHoHsind.countindpcakinship2distkinship2grmkinshipShiftmat2vecmatchingms2bedms2dosnb.allelespairwise.betaspairwise.fst.dosagepairwise.neifstpairwise.WCfstpcoapi.dosagepop.freqpp.fstpp.sigma.locqn2.read.fstatread.fstatread.fstat.dataread.msread.VCFsamp.betweensamp.between.withinsamp.withinsexbias.testsim.genotsim.genot.metapop.tsim.genot.tsubsampindTajimaD.dosagetest.betweentest.between.withintest.gtest.withintheta.Watt.dosagevarcompvarcomp.globvec2matwcwrite.bayescanwrite.fstatwrite.pedwrite.struct
Dependencies:ade4adegenetapebase64encbootbslibcachemcliclustercolorspacecommonmarkcpp11crayondigestdplyrfansifarverfastmapfontawesomefsgastongenericsggplot2gluegtablegtoolshtmltoolshttpuvigraphisobandjquerylibjsonlitelabelinglaterlatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmepermutepillarpixmappkgconfigplyrpromisesR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRcppParallelreshape2rlangsassscalessegmentedseqinrshinysourcetoolsspstringistringrtibbletidyselectutf8vctrsveganviridisLitewithrxtable