YHap: software for probabilistic assignment of Y haplogroups from population re-sequencing data

TL;DR

YHap is a software tool designed to probabilistically assign Y haplogroups from population re-sequencing data, effectively handling low-coverage sequencing and providing accurate posterior probabilities.

Contribution

It introduces a novel probabilistic method for Y haplogroup assignment that leverages information across multiple samples in population sequencing data.

Findings

Provides accurate probabilistic Y haplogroup assignments

Handles low-coverage sequencing data effectively

Incorporates information sharing across samples

Abstract

Y haplogroup analyses are an important component of genealogical reconstruction, population genetic analyses, medical genetics and forensics. These fields are increasingly moving towards use of low-coverage, high throughput sequencing. However, there is as yet no software available for using sequence data to assign Y haplogroup groups probabilistically, such that the posterior probability of assignment fully reflects the information present in the data, and borrows information across all samples sequenced from a population. YHap addresses this problem.