mmod: Modern Measures of Population Differentiation

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Provides functions for measuring population divergence from genotypic data.

Author
David Winter [aut, cre], Peter Green [ctb], Zhian Kamvar [ctb], Thierry Gosselin [ctb]
Date of publication
2016-09-16 01:57:13
Maintainer
David Winter <david.winter@gmail.com>
License
MIT + file LICENSE
Version
1.3.2
URLs

View on CRAN

Man pages

as.genind.DNAbin
as.genind.DNAbin
chao_bootstrap
Produce bootstrap samples from each subpopulation of a genind...
diff_stats
Calculate differentiation statistics for a genind object
diff_test
An exact test of population differentiation for genind...
dist.codom
Calculate distance between individual for co-dominant locus
D_Jost
Calculate Jost's D
Gst_Hedrick
Calculate Nei's Gst using estimators for Hs and Ht
Gst_Nei
Calculate Nei's Gst using estimators for Hs and Ht
harmonic_mean
Harmonic mean
jacknife_populations
Create jacknife samples of a genind object by population
mmod
Modern Measures of Differentiation
pairwise_D
Calculates pairwise values of Jost's D
pairwise_Gst_Hedrick
Calculates pairwise values of Hedrick's G'st
pairwise_Gst_Nei
Calculates pairwise values of Nei's Gst
Phi_st_Meirmans
Calculate Phi_st from a genind object
rgenotypes
Randomly create genotypes
summarise_bootstrap
Apply a differentiation statistic to a bootstrap sample

Files in this package

mmod
mmod/inst
mmod/inst/CITATION
mmod/inst/doc
mmod/inst/doc/mmod-demo.Rnw
mmod/inst/doc/mmod-demo.R
mmod/inst/doc/mmod-demo.pdf
mmod/tests
mmod/tests/testthat
mmod/tests/testthat/test_stats.R
mmod/tests/testthat/test.gen
mmod/tests/test-all.R
mmod/NAMESPACE
mmod/NEWS
mmod/R
mmod/R/as.genind.DNAbin.R
mmod/R/pairwise.R
mmod/R/HsHt.R
mmod/R/diff_stats.R
mmod/R/D_Jost.R
mmod/R/dist.codom.R
mmod/R/Gst_Hedrick.R
mmod/R/Phi_st_Meirmans.R
mmod/R/harmonic_mean.R
mmod/R/diff_test.R
mmod/R/jacknife_pop.R
mmod/R/Gst_Nei.R
mmod/R/help.R
mmod/R/chao_bootstrap.R
mmod/R/summarise_bootstrap.R
mmod/R/rgenotypes.R
mmod/vignettes
mmod/vignettes/mmod-demo.Rnw
mmod/MD5
mmod/build
mmod/build/vignette.rds
mmod/DESCRIPTION
mmod/man
mmod/man/mmod.Rd
mmod/man/Phi_st_Meirmans.Rd
mmod/man/Gst_Nei.Rd
mmod/man/pairwise_D.Rd
mmod/man/diff_test.Rd
mmod/man/Gst_Hedrick.Rd
mmod/man/dist.codom.Rd
mmod/man/pairwise_Gst_Nei.Rd
mmod/man/D_Jost.Rd
mmod/man/as.genind.DNAbin.Rd
mmod/man/rgenotypes.Rd
mmod/man/harmonic_mean.Rd
mmod/man/pairwise_Gst_Hedrick.Rd
mmod/man/chao_bootstrap.Rd
mmod/man/summarise_bootstrap.Rd
mmod/man/jacknife_populations.Rd
mmod/man/diff_stats.Rd
mmod/LICENSE