Estimating genotyping error rates

We developed a method to infer genotyping error rates with pedigree analysis. We demonstrated this technique using genotype-phase information on a dataset from whole-genome sequencing of owl monkeys (Aotus nancymaae). The abbreviated counts for genotype-phase combinations in four pedigrees of owl monkeys are provided here as a set of tab separated text files. Column names in each file are the genotypic-phase combinations for the five individuals in the pedigree. Genotypes are abbreviated by a single digit: 0, 1, and 2 for homozygous reference, heterozygous, and homozygous alternate respectively. These are ordered as: mother, father, focal individual, partner of focal, and child. Phases are abbreviated as M and F for mother and father respectively. There are four non-header rows in each file, ordered by increasing stringency of minimum genotype quality (GQ): no filter, 20, 40, 60.