Genomer — A Swiss Army Knife for Genome Scaffolding

Michael D Barton and Hazel A Barton

PLOS ONE, 2013, vol. 8, issue 6, 1-3

Abstract: The increasing accessibility and reduced costs of sequencing has made genome analysis accessible to more and more researchers. Yet there remains a steep learning curve in the subsequent computational steps required to process raw reads into a database-deposited genome sequence. Here we describe “Genomer,” a tool to simplify the manual tasks of finishing and uploading a genome sequence to a database. Genomer can format a genome scaffold into the common files required for submission to GenBank. This software also simplifies updating a genome scaffold by allowing a human-readable YAML format file to be edited instead of large sequence files. Genomer is written as a command line tool and is an effort to make the manual process of genome scaffolding more robust and reproducible. Extensive documentation and video tutorials are available at http://next.gs.

Date: 2013
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0066922

DOI: 10.1371/journal.pone.0066922

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