Global and Local Admixture Inference in Polyploids

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Documentation for package ‘AdmixPoly’ version 1.0.0

• DESCRIPTION file
• User guides, package vignettes and other documentation
• Package README

Help Pages

AdmixPoly-package	AdmixPoly: Global and Local Admixture Inference in Polyploids
AdmixGlobal	Expectation-Maximization algorithm for global (genome-wide) admixture inference
AdmixLocal	Forward-Backward algorithm for local admixture inference
AdmixPoly	AdmixPoly: Global and Local Admixture Inference in Polyploids
ComputeLogLik	Calculate the log-likelihood
GlobalPlot	Plot global admixture proportions
LocalPlot	Plot local ancestry dosages
ReadHPA	Read Haplotype Presence-Absence (HPA) file
ReadVCF	Read VCF file
SimulatePop	Simulate an admixed polyploid population characterized for multi-allelic markers
UpdateParam	Update Prop and Freq parameters for EM step