Mosdepth: quick coverage calculation for genomes and exomes

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ID: 299057
2017
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Abstract
Abstract Summary Mosdepth is a new command-line tool for rapidly calculating genome-wide sequencing coverage. It measures depth from BAM or CRAM files at either each nucleotide position in a genome or for sets of genomic regions. Genomic regions may be specified as either a BED file to evaluate coverage across capture regions, or as a fixed-size window as required for copy-number calling. Mosdepth uses a simple algorithm that is computationally efficient and enables it to quickly produce coverage summaries. We demonstrate that mosdepth is faster than existing tools and provides flexibility in the types of coverage profiles produced. Availability and implementation mosdepth is available from https://github.com/brentp/mosdepth under the MIT license. Supplementary information Supplementary data are available at Bioinformatics online.
Reference Key
openalex_W2950006249 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Brent S. Pedersen, Aaron R. Quinlan
Journal BMC Bioinformatics
Year 2017
DOI
10.1093/bioinformatics/btx699
URL
https://academic.oup.com/bioinformatics/article-pdf/34/5/867/25331748/btx699.pdf
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