Fast and accurate relatedness estimation from high-throughput sequencing data in the presence of inbreeding.

ABSTRACT:

Background

The estimation of relatedness between pairs of possibly inbred individuals from high-throughput sequencing (HTS) data has previously not been possible for samples where we cannot obtain reliable genotype calls, as in the case of low-coverage data.

Results

We introduce ngsRelateV2, a major revision of ngsRelateV1, a program that originally allowed for estimation of relatedness from HTS data among non-inbred individuals only. The new revised version takes into account the possibility of individuals being inbred by estimating the 9 condensed Jacquard coefficients along with various other relatedness statistics. The program is threaded and scales linearly with the number of cores allocated to the process.

Conclusion

The program is available as an open source C/

SUBMITTER: Hanghoj K 

PROVIDER: S-EPMC6488770 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature