Population and Evolutionary Genetics Analysis System


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Documentation for package ‘pegas’ version 0.1

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pegas-package Population and Evolutionary Genetics Analysis System
amova Analysis of Molecular Variance
as.loci Conversion Among Allelic Data Classes
expand.genotype Utily Functions for pegas
Fst F-Statistics
genind2loci Conversion Among Allelic Data Classes
getAlleles Utily Functions for pegas
getGenotypes Utily Functions for pegas
getPloidy Utily Functions for pegas
haploNet Haplotype Networks
haplotype Haplotype Extraction and Frequencies
hw.test Test of Hardy-Weinberg Equilibrium
loci2genind Conversion Among Allelic Data Classes
MMD Mismatch Distribution
pegas Population and Evolutionary Genetics Analysis System
plot.haploNet Haplotype Networks
plot.haplotype Haplotype Extraction and Frequencies
plot.summary.loci Print and Summaries of Loci Objects
print.amova Analysis of Molecular Variance
print.loci Print and Summaries of Loci Objects
print.summary.loci Print and Summaries of Loci Objects
R2.test Ramos-Onsins-Rozas Test of Neutrality
read.gtx Read Genetix Data Files
read.loci Read Allelic Data Files
summary.loci Print and Summaries of Loci Objects
tajima.test Test of the Neutral Mutation Hypothesis
write.loci Write Allelic Data Files