Population Assignment using Genetic, Non-Genetic or Integrated Data in a Machine Learning Framework

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Documentation for package ‘assignPOP’ version 1.3.0

• DESCRIPTION file.

Help Pages

accuracy.kfold	Estimate assignment accuracies of K-fold cross-validation results
accuracy.MC	Estimate assignment accuracies of Monte-Carlo cross-validation results
accuracy.plot	Make a boxplot (ggplot2 style) of assignment accuracy from cross-validation results
assign.kfold	Population assignment test using K-fold cross-validation
assign.matrix	Make an assignment maxtrix from cross-validation results
assign.MC	Population assignment test using Monte-Carlo cross-validation
assign.X	Perform a population assignment test on unknown individuals using known data
check.loci	Check which loci frequently have high Fst across training sets
compile.data	Compile genetic and other non-genetic data
membership.plot	Make a membership probability plot using results from K-fold cross-validation (ggplot2 style)
read.Genepop	Read GENEPOP format file
read.Structure	Read Structure format file
reduce.allele	Remove low variance alleles (dimensionality reduction)