GenomePeek-an online tool for prokaryotic genome and metagenome analysis

Katelyn McNair, Robert A. Edwards

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

As more and more prokaryotic sequencing takes 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.

Original languageEnglish
Article numbere1025
Number of pages14
JournalPeerJ
Volume2015
Issue number6
DOIs
Publication statusPublished - 16 Jun 2015
Externally publishedYes

Bibliographical note

Distributed under Creative Commons CC-BY 4.0

Keywords

  • Abundance
  • Archaea
  • Bacteria
  • Distribution
  • Genome
  • Metagenome
  • Population
  • Sequencing
  • Taxonomic

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