README.md

Accurate sequence variant genotyping in cattle using variation-aware genome graphs

This repository contained collection of the Snakemake pipelines used in the paper.

Crysnanto D, Wurmser C, Pausch H. Accurate sequence variant genotyping in cattle using variation-aware genome graphs. Genet Sel Evol. 2019;51:21. doi:10.1186/s12711-019-0462-x

Please go to the respective page for details of each pipeline:

• Graphtyper

• GATK

• SAMtools

Contributor

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Danang Crysnanto
Animal Genomics ETH Zurich

Email:danang.crysnanto@usys.ethz.ch
Personal web: danangcrysnanto.github.io
License: MIT