hapsim (version 0.31)

Haplotype Data Simulation

Description

Package for haplotype-based genotype simulations. Haplotypes are generated such that their allele frequencies and linkage disequilibrium coefficients match those estimated from an input data set.

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Version

Install

install.packages('hapsim')

Monthly Downloads

198

Version

0.31

License

GPL (>= 2)

Maintainer

Apostolos Dimitromanolakis

Last Published

June 7th, 2017

Functions in hapsim (0.31)

checkpd

Checks that a covariance matrix is positive definite

cor2dprime

Correlations to D' coefficients conversion

mergemats

Merges two LD matrices

mse

Mean Square Error

haplofreqs

Haplotype frequencies

haplosim

Haplotype data simulator

ldplot

LD plot

makepd

Makes a matrix positive definite

cortocov

Correlation to covariance conversion

covtocor

Covariance to correlation conversion

divlocus

Diversity score

haplodata

Haplotype object creator

ACEdata

ACE data set

allelefreqs

Estimates allele frequencies

sumsqscale

Scales a matrix