{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,16]],"date-time":"2026-04-16T16:05:02Z","timestamp":1776355502508,"version":"3.51.2"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2017,10,31]],"date-time":"2017-10-31T00:00:00Z","timestamp":1509408000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000051","name":"National Human Genome Research Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000051","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01HG006693"],"award-info":[{"award-number":["R01HG006693"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01HG009141"],"award-info":[{"award-number":["R01HG009141"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01GM124355"],"award-info":[{"award-number":["R01GM124355"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["U24CA209999"],"award-info":[{"award-number":["U24CA209999"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>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.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>mosdepth is available from https:\/\/github.com\/brentp\/mosdepth under the MIT license.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btx699","type":"journal-article","created":{"date-parts":[[2017,10,30]],"date-time":"2017-10-30T16:13:13Z","timestamp":1509379993000},"page":"867-868","source":"Crossref","is-referenced-by-count":1157,"title":["Mosdepth: quick coverage calculation for genomes and exomes"],"prefix":"10.1093","volume":"34","author":[{"given":"Brent S","family":"Pedersen","sequence":"first","affiliation":[{"name":"Department of Human Genetics, University of Utah, Salt Lake City, UT, USA"},{"name":"Department of Biomedical Informatics, University of Utah, Salt Lake City, UT, USA"},{"name":"USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT, USA"}]},{"given":"Aaron R","family":"Quinlan","sequence":"additional","affiliation":[{"name":"Department of Human Genetics, University of Utah, Salt Lake City, UT, USA"},{"name":"Department of Biomedical Informatics, University of Utah, Salt Lake City, UT, USA"},{"name":"USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT, USA"}]}],"member":"286","published-online":{"date-parts":[[2017,10,31]]},"reference":[{"key":"2023012712405086100_btx699-B1","doi-asserted-by":"crossref","first-page":"e69","DOI":"10.1093\/nar\/gks003","article-title":"cn.MOPS: mixture of poissons for discovering copy number variations in next-generation sequencing data with a low false discovery rate","volume":"40","author":"Klambauer","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"2023012712405086100_btx699-B2","doi-asserted-by":"crossref","first-page":"2843","DOI":"10.1093\/bioinformatics\/btu356","article-title":"Toward better understanding of artifacts in variant calling from high-coverage samples","volume":"30","author":"Li","year":"2014","journal-title":"Bioinformatics"},{"key":"2023012712405086100_btx699-B3","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/map format and samtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"2023012712405086100_btx699-B4","doi-asserted-by":"crossref","first-page":"201","DOI":"10.1038\/nature18964","article-title":"The simons genome diversity project: 300 genomes from 142 diverse populations","volume":"538","author":"Mallick","year":"2016","journal-title":"Nature"},{"key":"2023012712405086100_btx699-B5","first-page":"1","article-title":"Indexcov: fast coverage quality control for whole-genome sequencing","author":"Pedersen","year":"2017"},{"key":"2023012712405086100_btx699-B6","doi-asserted-by":"crossref","DOI":"10.1002\/0471250953.bi1112s47","article-title":"Bedtools: the swiss-army tool for genome feature analysis","volume":"47","author":"Quinlan","year":"2014","journal-title":"Curr. 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