GraphAligner: rapid and versatile sequence-to-graph alignment.
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ABSTRACT:
SUBMITTER: Rautiainen M
PROVIDER: S-EPMC7513500 | biostudies-literature | 2020 Sep
REPOSITORIES: biostudies-literature
Publications
GraphAligner: rapid and versatile sequence-to-graph alignment.
Rautiainen Mikko M Marschall Tobias T
Genome biology 20200924 1
Genome graphs can represent genetic variation and sequence uncertainty. Aligning sequences to genome graphs is key to many applications, including error correction, genome assembly, and genotyping of variants in a pangenome graph. Yet, so far, this step is often prohibitively slow. We present GraphAligner, a tool for aligning long reads to genome graphs. Compared to the state-of-the-art tools, GraphAligner is 13x faster and uses 3x less memory. When employing GraphAligner for error correction, w ...[more]
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