GenomePeek—an online tool for prokaryotic genome and metagenome analysis

McNair, Katelyn; Edwards, Robert A.

doi:10.7717/peerj.1025

Title: GenomePeek—an online tool for prokaryotic genome and metagenome analysis

Journal Article · Tue Jun 16 00:00:00 EDT 2015 · PeerJ

DOI:https://doi.org/10.7717/peerj.1025· OSTI ID:1221899

McNair, Katelyn ^[1]; Edwards, Robert A. ^[2]

San Diego State University, San Diego, CA (United States). Department of Computer Science; San Diego State University, San Diego, CA (United States). Department of Biology
San Diego State University, San Diego, CA (United States). Department of Computer Science; San Diego State University, San Diego, CA (United States). Department of Biology; San Diego State University, San Diego, CA (United States). Computational Sciences Research Center; Argonne National Lab. (ANL), Argonne, IL (United States)

As increases in prokaryotic sequencing take place, a method to quickly and accurately analyze this data is needed. Previous tools are mainly designed for metagenomic analysis and have limitations; such as long runtimes and significant false positive error rates. The online tool GenomePeek (edwards.sdsu.edu/GenomePeek) was developed to analyze both single genome and metagenome sequencing files, quickly and with low error rates. GenomePeek uses a sequence assembly approach where reads to a set of conserved genes are extracted, assembled and then aligned against the highly specific reference database. GenomePeek was found to be faster than traditional approaches while still keeping error rates low, as well as offering unique data visualization options.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: USDOE

Contributing Organization:: National Science Foundation (NSF), Washington, DC (United States)

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1221899

Journal Information:: PeerJ, Vol. 3; ISSN 2167-8359

Publisher:: PeerJ Inc.Copyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 10 works

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Title: GenomePeek—an online tool for prokaryotic genome and metagenome analysis

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