RT Journal Article SR Electronic T1 Building Genomic Analysis Pipelines in a Hackathon Setting with Bioinformatician Teams: DNA-seq, Epigenomics, Metagenomics and RNA-seq JF bioRxiv FD Cold Spring Harbor Laboratory SP 018085 DO 10.1101/018085 A1 Ben Busby A1 Allissa Dillman A1 Claire L. Simpson A1 Ian Fingerman A1 Sijung Yun A1 David M. Kristensen A1 Lisa Federer A1 Naisha Shah A1 Matthew C. LaFave A1 Laura Jimenez-Barron A1 Manjusha Pande A1 Wen Luo A1 Brendan Miller A1 Cem Mayden A1 Dhruva Chandramohan A1 Kipper Fletez-Brant A1 Paul W. Bible A1 Sergej Nowoshilow A1 Alfred Chan A1 Eric JC Galvez A1 Jeremy Chignell A1 Joseph N. Paulson A1 Manoj Kandpal A1 Suhyeon Yoon A1 Esther Asaki A1 Abhinav Nellore A1 Adam Stine A1 Robert Sanders A1 Jesse Becker A1 Matt Lesko A1 Mordechai Abzug A1 Eugene Yaschenko YR 2015 UL http://biorxiv.org/content/early/2015/05/05/018085.abstract AB We assembled teams of genomics professionals to assess whether we could rapidly develop pipelines to answer biological questions commonly asked by biologists and others new to bioinformatics by facilitating analysis of high-throughput sequencing data. In January 2015, teams were assembled on the National Institutes of Health (NIH) campus to address questions in the DNA-seq, epigenomics, metagenomics and RNA-seq subfields of genomics. The only two rules for this hackathon were that either the data used were housed at the National Center for Biotechnology Information (NCBI) or would be submitted there by a participant in the next six months, and that all software going into the pipeline was open-source or open-use. Questions proposed by organizers, as well as suggested tools and approaches, were distributed to participants a few days before the event and were refined during the event. Pipelines were published on GitHub, a web service providing publicly available, free-usage tiers for collaborative software development (https://github.com/features/). The code was published at https://github.com/DCGenomics/ with separate repositories for each team, starting with hackathon_v001.