{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,13]],"date-time":"2026-03-13T15:39:16Z","timestamp":1773416356872,"version":"3.50.1"},"reference-count":2,"publisher":"Oxford University Press (OUP)","issue":"21","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The Affymetrix Axiom genotyping standard and \u2018best practice\u2019 workflow for Linux and Mac users consists of three stand-alone executable programs (Affymetrix Power Tools) and an R package (SNPolisher). Currently, SNP analysis has to be performed in a step-by-step procedure. Manual intervention and\/or programming skills by the user is required at each intermediate point, as Affymetrix Power Tools programs do not produce input files for the program next-in-line. An additional problem is that the output format of genotypes is not compatible with most analysis software currently available. AffyPipe solves all the above problems, by automating both standard and \u2018best practice\u2019 workflows for any species genotyped with the Axiom technology. AffyPipe does not require programming skills and performs all the steps necessary to obtain a final genotype file. Furthermore, users can directly edit SNP probes and export genotypes in PLINK format.<\/jats:p>\n               <jats:p>Availability and implementation: \u2003 https:\/\/github.com\/nicolazzie\/AffyPipe.git .<\/jats:p>\n               <jats:p>Contact: \u00a0ezequiel.nicolazzi@tecnoparco.org<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu486","type":"journal-article","created":{"date-parts":[[2014,7,16]],"date-time":"2014-07-16T00:23:13Z","timestamp":1405470193000},"page":"3118-3119","source":"Crossref","is-referenced-by-count":41,"title":["AffyPipe: an open-source pipeline for Affymetrix Axiom genotyping workflow"],"prefix":"10.1093","volume":"30","author":[{"given":"Ezequiel L.","family":"Nicolazzi","sequence":"first","affiliation":[{"name":"Fondazione Parco Tecnologico Padano, Lodi (LO), 26900, Italy"}]},{"given":"Daniela","family":"Iamartino","sequence":"additional","affiliation":[{"name":"Fondazione Parco Tecnologico Padano, Lodi (LO), 26900, Italy"}]},{"given":"John L.","family":"Williams","sequence":"additional","affiliation":[{"name":"Fondazione Parco Tecnologico Padano, Lodi (LO), 26900, Italy"}]}],"member":"286","published-online":{"date-parts":[[2014,7,15]]},"reference":[{"key":"2023012711574764400_btu486-B1","first-page":"151","article-title":"The Buffalo Genome and the Application of Genomics in Animal Management and Improvement","volume":"32","author":"Iamartino","year":"2013","journal-title":"Buffalo Bull."},{"key":"2023012711574764400_btu486-B2","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1086\/519795","article-title":"PLINK: a toolset for whole-genome association and population-based linkage analysis","volume":"81","author":"Purcell","year":"2007","journal-title":"Am. J. Hum. Genet."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/21\/3118\/48931105\/bioinformatics_30_21_3118.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/21\/3118\/48931105\/bioinformatics_30_21_3118.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,27]],"date-time":"2023-01-27T12:26:23Z","timestamp":1674822383000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/30\/21\/3118\/2422193"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,7,15]]},"references-count":2,"journal-issue":{"issue":"21","published-print":{"date-parts":[[2014,11,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btu486","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2014,11,1]]},"published":{"date-parts":[[2014,7,15]]}}}