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yacrd and fpa: upstream tools for long-read genome assembly
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yacrd and fpa: upstream tools for long-read genome assembly
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Paper
yacrd and fpa: upstream tools for long-read genome assembly
2020
Overview
Motivation: Genome assembly is increasingly performed on long, uncorrected reads. Assembly quality may be degraded due to unfiltered chimeric reads; also, the storage of all read overlaps can take up to terabytes of disk space. Results: We introduce two tools, yacrd and fpa, preform respectively chimera removal , read scrubbing, and filter out spurious overlaps. We show that yacrd results in higher-quality assemblies and is one hundred times faster than the best available alternative. Availability: https://github.com/natir/yacrd and https://github.com/natir/fpa Footnotes * Important revision, we add many datasets (more than 60) in result and two figures to present how our tools work. * https://github.com/natir/yacrd-and-fpa-upstream-tools-for-lr-genome-assembly
Publisher
Cold Spring Harbor Laboratory Press,Cold Spring Harbor Laboratory
Subject
