A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is
We introduce Giraffe, a pangenome short read mapper that can efficiently map to a collection of haplotypes threaded through a sequence graph. Giraffe, part of the variation graph toolkit (vg), maps reads to thousands of human genomes at around the same speed BWA-MEM maps reads to a single reference genome, while maintaining comparable accuracy to VG-MAP, vg's original mapper. We have developed efficient genotyping pipelines using Giraffe. We demonstrate improvements in genotyping for singledoi:10.1101/2020.12.04.412486 fatcat:z3lddejn45bvtd7634zpqy43sy