mmod: Modern Measures of Population Differentiation
Version 1.3.3

Provides functions for measuring population divergence from genotypic data.

Browse man pages Browse package API and functions Browse package files

AuthorDavid Winter [aut, cre], Peter Green [ctb], Zhian Kamvar [ctb], Thierry Gosselin [ctb]
Date of publication2017-04-06 06:54:15 UTC
MaintainerDavid Winter <david.winter@gmail.com>
LicenseMIT + file LICENSE
Version1.3.3
URL https://github.com/dwinter/mmod
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("mmod")

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

Functions

D.per.locus Source code
D_Jost Man page Source code
Gst_Hedrick Man page Source code
Gst_Nei Man page Source code
HsHt Source code
Phi_st_Meirmans Man page Source code
as.genind.DNAbin Man page Source code
bs_summary_stats Source code
chao_bootstrap Man page Source code
combined_summary_stats Source code
diff_stats Man page Source code
diff_test Man page Source code
dist.codom Man page Source code
genind_bs Source code
harmonic_mean Man page Source code
jacknife_populations Man page Source code
mmod Man page
mmod-package Man page Man page
pairwise_D Man page Source code
pairwise_Gst_Hedrick Man page Source code
pairwise_Gst_Nei Man page Source code
pairwise_fxn Source code
pop_afreqs Source code
print.genind_bootstrap Source code
print.summarised_bs Source code
rgenotypes Man page Source code
summarise_bootstrap Man page Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/mmod-demo.Rnw
inst/doc/mmod-demo.R
inst/doc/mmod-demo.pdf
tests
tests/testthat
tests/testthat/test_stats.r
tests/testthat/test.gen
tests/test-all.R
NAMESPACE
NEWS
R
R/as.genind.DNAbin.R
R/pairwise.R
R/HsHt.R
R/diff_stats.R
R/D_Jost.R
R/dist.codom.R
R/Gst_Hedrick.R
R/Phi_st_Meirmans.R
R/harmonic_mean.R
R/diff_test.R
R/jacknife_pop.R
R/Gst_Nei.R
R/help.R
R/chao_bootstrap.R
R/summarise_bootstrap.R
R/rgenotypes.R
vignettes
vignettes/mmod-demo.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/mmod.Rd
man/Phi_st_Meirmans.Rd
man/Gst_Nei.Rd
man/pairwise_D.Rd
man/diff_test.Rd
man/Gst_Hedrick.Rd
man/dist.codom.Rd
man/pairwise_Gst_Nei.Rd
man/D_Jost.Rd
man/as.genind.DNAbin.Rd
man/rgenotypes.Rd
man/harmonic_mean.Rd
man/pairwise_Gst_Hedrick.Rd
man/chao_bootstrap.Rd
man/summarise_bootstrap.Rd
man/jacknife_populations.Rd
man/diff_stats.Rd
LICENSE
mmod documentation built on May 19, 2017, 11:48 a.m.