NgsRelate: a software tool for estimating pairwise relatedness from next-generation sequencing data

Thorfinn Sand Korneliussen, Ida Moltke
2015 Bioinformatics  
Motivation: Pairwise relatedness estimation is important in many contexts such as disease mapping and population genetics. However, all existing estimation methods are based on called genotypes, which is not ideal for next-generation sequencing (NGS) data of low depth from which genotypes cannot be called with high certainty. Results: We present a software tool, NgsRelate, for estimating pairwise relatedness from NGS data. It provides maximum likelihood estimates that are based on genotype
more » ... ihoods instead of genotypes and thereby takes the inherent uncertainty of the genotypes into account. Using both simulated and real data, we show that NgsRelate provides markedly better estimates for low-depth NGS data than two state-of-the-art genotype-based methods.
doi:10.1093/bioinformatics/btv509 pmid:26323718 pmcid:PMC4673978 fatcat:bu6ombrxczgjrlu4sg273tigmm