{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,16]],"date-time":"2026-04-16T18:21:04Z","timestamp":1776363664616,"version":"3.51.2"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2021,10,12]],"date-time":"2021-10-12T00:00:00Z","timestamp":1633996800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004189","name":"Max Planck Society","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100004189","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Genome-wide association study (GWAS) requires a researcher to perform a multitude of different actions during analysis. From editing and formatting genotype and phenotype information to running the analysis software to summarizing and visualizing the results. A typical GWAS workflow poses a significant challenge of utilizing the command-line, manual text-editing and requiring knowledge of one or more programming\/scripting languages, especially for newcomers.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>vcf2gwas is a package that provides a convenient pipeline to perform all of the steps of a traditional GWAS workflow by reducing it to a single command-line input of a Variant Call Format file and a phenotype data file. In addition, all the required software is installed with the package. vcf2gwas also implements several useful features enhancing the reproducibility of GWAS analysis.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The source code of vcf2gwas is available under the GNU General Public License. The package can be easily installed using conda. Installation instructions and a manual including tutorials can be accessed on the package website at https:\/\/github.com\/frankvogt\/vcf2gwas.<\/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\/btab710","type":"journal-article","created":{"date-parts":[[2021,10,8]],"date-time":"2021-10-08T10:31:45Z","timestamp":1633689105000},"page":"839-840","source":"Crossref","is-referenced-by-count":44,"title":["<i>vcf2gwas<\/i>\n                    : Python API for comprehensive GWAS analysis using GEMMA"],"prefix":"10.1093","volume":"38","author":[{"given":"Frank","family":"Vogt","sequence":"first","affiliation":[{"name":"Department of Molecular Biology, Max Planck Institute for Developmental Biology , Tuebingen 72076, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5397-6002","authenticated-orcid":false,"given":"Gautam","family":"Shirsekar","sequence":"additional","affiliation":[{"name":"Department of Molecular Biology, Max Planck Institute for Developmental Biology , Tuebingen 72076, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2114-7963","authenticated-orcid":false,"given":"Detlef","family":"Weigel","sequence":"additional","affiliation":[{"name":"Department of Molecular Biology, Max Planck Institute for Developmental Biology , Tuebingen 72076, Germany"}]}],"member":"286","published-online":{"date-parts":[[2021,10,12]]},"reference":[{"key":"2023020108483763200_btab710-B1","doi-asserted-by":"crossref","first-page":"giab008","DOI":"10.1093\/gigascience\/giab008","article-title":"Twelve years of SAMtools and BCFtools","volume":"10","author":"Danecek","year":"2021","journal-title":"GigaScience"},{"key":"2023020108483763200_btab710-B2","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1086\/519795","article-title":"PLINK: a tool set for whole-genome association and population-based linkage analyses","volume":"81","author":"Purcell","year":"2007","journal-title":"Am. 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