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Available: http:\/\/arxiv.org\/abs\/1210.0530<\/ext-link>. Accessed 27 October 2012."},{"key":"ref11","doi-asserted-by":"crossref","first-page":"1611","DOI":"10.1101\/gr.361602","article-title":"The Bioperl toolkit: Perl modules for the life sciences","volume":"12","author":"JE Stajich","year":"2012","journal-title":"Genome Res"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"1422","DOI":"10.1093\/bioinformatics\/btp163","article-title":"Biopython: freely available Python tools for computational molecular biology and bioinformatics","volume":"25","author":"PJ Cock","year":"2009","journal-title":"Bioinformatics"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"2693","DOI":"10.1093\/bioinformatics\/bts494","article-title":"BioJava: an open-source framework for bioinformatics in 2012","volume":"28","author":"A Prli\u0107","year":"2012","journal-title":"Bioinformatics"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"2617","DOI":"10.1093\/bioinformatics\/btq475","article-title":"BioRuby: bioinformatics software for the Ruby programming language","volume":"26","author":"N Goto","year":"2010","journal-title":"Bioinformatics"},{"key":"ref15","unstructured":"Barnes N (2012) The science code manifesto. Available: http:\/\/sciencecodemanifesto.org\/<\/ext-link>. Accessed 15 October 2012."},{"key":"ref16","first-page":"775","article-title":"Computational science: \u2026error\u2026why scientific programming does not compute","volume":"467","author":"Zeeya Merali","year":"2010","journal-title":"Nature"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"244","DOI":"10.1093\/bib\/bbr035","article-title":"A toolbox for developing bioinformatics software","volume":"13","author":"K Rother","year":"2012","journal-title":"Brief Bioinform"},{"key":"ref18","unstructured":"The Apache Software Foundation. The Apache way. Available: http:\/\/incubator.apache.org\/learn\/theapacheway.html<\/ext-link>. Accessed 17 October 2012."},{"key":"ref19","unstructured":"Gardler R (2010) Community development at the Apache Software Foundation. Ross Gardler's keynote from BOSC 2010. Available: http:\/\/www.slideshare.net\/bosc2010\/gardler-bosc2010-communitydevelopmentattheasf<\/ext-link>. Accessed 27 October 2012."},{"key":"ref20","doi-asserted-by":"crossref","first-page":"1035","DOI":"10.1093\/bioinformatics\/bts080","article-title":"Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics","volume":"28","author":"RJ Bonnal","year":"2012","journal-title":"Bioinformatics"},{"key":"ref21","unstructured":"Raymond ES (1999) The cathedral & the bazaar. O'Reilly. ISBN 1-56592-724-9."},{"key":"ref22","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1186\/1471-2105-7-273","article-title":"Agile methods in biomedical software development: a multi-site experience report","volume":"7","author":"DW Kane","year":"2006","journal-title":"BMC Bioinformatics"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"e44","DOI":"10.1371\/journal.pcbi.0030044","article-title":"Ten simple rules for a successful collaboration","volume":"3","author":"Q Vicens","year":"2007","journal-title":"PLoS Comput Biol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"e12","DOI":"10.1371\/journal.pcbi.0020012","article-title":"Ten simple rules for getting grants","volume":"2","author":"PE Bourne","year":"2006","journal-title":"PLoS Comput Biol"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002802","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,5,9]],"date-time":"2020-05-09T04:14:56Z","timestamp":1588997696000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002802"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,12,6]]},"references-count":24,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2012,12,6]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1002802","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,12,6]]}}}