DEMEtics: Evaluating the genetic differentiation between populations based on Gst and D values.

This package allows to calculate the fixation index Gst (Nei, 1973) and the differentiation index D (Jost, 2008) pairwise between or averaged over several populations. P-values, stating the significance of differentiation, and 95 percent confidence intervals can be estimated using bootstrap resamplings. In the case that more than two populations are compared pairwise, the p-values are adjusted by bonferroni correction and in several other ways due to the multiple comparison from one data set.

AuthorAlexander Jueterbock, Philipp Kraemer, Gabriele Gerlach and Jana Deppermann
Date of publication2013-12-03 11:59:32
MaintainerAlexander Jueterbock <Alexander-Jueterbock@web.de>
LicenseGPL (>= 2)
Version0.8-7

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Files

DEMEtics
DEMEtics/inst
DEMEtics/inst/CITATION
DEMEtics/NAMESPACE
DEMEtics/data
DEMEtics/data/Example.untransformed.txt.gz
DEMEtics/data/Example.transformed.txt.gz
DEMEtics/R
DEMEtics/R/p.values.loci.calc.r
DEMEtics/R/Hj.r
DEMEtics/R/Calculate.Hj.values.r
DEMEtics/R/Ht.r
DEMEtics/R/Gst.r
DEMEtics/R/critical.ci.values.r
DEMEtics/R/Gendiff.values.r
DEMEtics/R/D.Jost.r
DEMEtics/R/p.value.correcture.r
DEMEtics/R/p.val.r
DEMEtics/R/harmonic.r
DEMEtics/R/Frequency.genotypes.calculation.r
DEMEtics/R/calculate.anzahlk.r
DEMEtics/R/Hardy.Weinberg.r
DEMEtics/R/Hj.values.1pop.r
DEMEtics/R/H.out.r
DEMEtics/R/chosen.calculations.r
DEMEtics/R/locus.means.calc.r
DEMEtics/R/this.genotype.calc.r
DEMEtics/R/Ht.value.calculations.r
DEMEtics/R/over.all.pops.r
DEMEtics/R/Bootstrapping.per.locus.r
DEMEtics/R/Hs.est.r
DEMEtics/R/p.value.loci.calc2.r
DEMEtics/R/Hs.Ht.est.calculation.r
DEMEtics/R/allelefreq.r
DEMEtics/R/pop.allele.proportions.r
DEMEtics/R/Hardy.calc.r
DEMEtics/R/v.loci.calc.r
DEMEtics/R/Dv.locis.corrected.calc.r
DEMEtics/R/Hj.values.one.population.r
DEMEtics/R/Locuswise.HWE.r
DEMEtics/R/D.r
DEMEtics/R/DEMEtics.env.r
DEMEtics/R/Hs.value.calculation.r
DEMEtics/R/Hs.values.calculation.r
DEMEtics/R/v.loci.calc2.r
DEMEtics/R/Hj.values.calculation.r
DEMEtics/R/sample.size.calc.r
DEMEtics/R/Dest.r
DEMEtics/R/Bootstrapping.CI.r
DEMEtics/R/Hs.r
DEMEtics/R/Gst.est.r
DEMEtics/R/Mean.allelefrequency.r
DEMEtics/R/Bootstrapping.p.r
DEMEtics/R/Ht.est.r
DEMEtics/R/calc.r
DEMEtics/R/Gst.Nei.r
DEMEtics/R/pair.pops.r
DEMEtics/R/inputformat.r
DEMEtics/R/allelefreq.calcs.r
DEMEtics/MD5
DEMEtics/DESCRIPTION
DEMEtics/man
DEMEtics/man/Example.transformed.Rd DEMEtics/man/Example.untransformed.Rd DEMEtics/man/D.JostaGst.Nei.Rd DEMEtics/man/DEMEtics-package.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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