Genotyping common, large structural variations in 5,202 genomes using pangenomes, the Giraffe mapper, and the vg toolkit

Abstract excerpt

<h4>ABSTRACT</h4> 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) 1 , maps reads to thousands of human genomes at around the same speed BWA-MEM 2 maps reads to a single reference genome, while maintaining comparable accuracy to VG-MAP, vg’s original mapper. We have deve...

Topics

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• Algorithms
• Computational Biology
• Genome, Fungal
• Genome, Human
• Genotyping Techniques
• High-Throughput Nucleotide Sequencing
• Quantitative Trait Loci
• Saccharomyces

Identifiers and source

Literature Corpus work

c1480d15-253a-592c-872d-53e088d08ea7

DOI

10.1101/2020.12.04.412486