EPIC-CoGe: Managing and analyzing genomic data

Andrew D.L. Nelson; Asher K. Haug-Baltzell; Sean Davey; Brian D. Gregory; Eric Lyons

doi:10.1093/bioinformatics/bty106

EPIC-CoGe: Managing and analyzing genomic data

Andrew D.L. Nelson, Asher K. Haug-Baltzell, Sean Davey, Brian D. Gregory, Eric Lyons

Research output: Contribution to journal › Article › peer-review

22 Scopus citations

Abstract

Summary: The EPIC-CoGe browser is a web-based genome visualization utility that integrates the GMOD JBrowse genome browser with the extensive CoGe genome database (currently containing over 30 000 genomes). In addition, the EPIC-CoGe browser boasts many additional features over basic JBrowse, including enhanced search capability and on-the-fly analyses for comparisons and analyses between all types of functional and diversity genomics data. There is no installation required and data (genome, annotation, functional genomic and diversity data) can be loaded by following a simple point and click wizard, or using a REST API, making the browser widely accessible and easy to use by researchers of all computational skill levels. In addition, EPIC-CoGe and data tracks are easily embedded in other websites and JBrowse instances.

Original language	English (US)
Pages (from-to)	2651-2653
Number of pages	3
Journal	Bioinformatics
Volume	34
Issue number	15
DOIs	https://doi.org/10.1093/bioinformatics/bty106
State	Published - Aug 1 2018

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/bty106

Cite this

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title = "EPIC-CoGe: Managing and analyzing genomic data",

abstract = "Summary: The EPIC-CoGe browser is a web-based genome visualization utility that integrates the GMOD JBrowse genome browser with the extensive CoGe genome database (currently containing over 30 000 genomes). In addition, the EPIC-CoGe browser boasts many additional features over basic JBrowse, including enhanced search capability and on-the-fly analyses for comparisons and analyses between all types of functional and diversity genomics data. There is no installation required and data (genome, annotation, functional genomic and diversity data) can be loaded by following a simple point and click wizard, or using a REST API, making the browser widely accessible and easy to use by researchers of all computational skill levels. In addition, EPIC-CoGe and data tracks are easily embedded in other websites and JBrowse instances.",

author = "Nelson, {Andrew D.L.} and Haug-Baltzell, {Asher K.} and Sean Davey and Gregory, {Brian D.} and Eric Lyons",

note = "Funding Information: This work was supported by the National Science Foundation [grant numbers IOS – 1339156, IOS – 1444490]. Publisher Copyright: {\textcopyright} The Author(s) 2018.",

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AU - Nelson, Andrew D.L.

AU - Haug-Baltzell, Asher K.

AU - Davey, Sean

AU - Gregory, Brian D.

AU - Lyons, Eric

N1 - Funding Information: This work was supported by the National Science Foundation [grant numbers IOS – 1339156, IOS – 1444490]. Publisher Copyright: © The Author(s) 2018.

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N2 - Summary: The EPIC-CoGe browser is a web-based genome visualization utility that integrates the GMOD JBrowse genome browser with the extensive CoGe genome database (currently containing over 30 000 genomes). In addition, the EPIC-CoGe browser boasts many additional features over basic JBrowse, including enhanced search capability and on-the-fly analyses for comparisons and analyses between all types of functional and diversity genomics data. There is no installation required and data (genome, annotation, functional genomic and diversity data) can be loaded by following a simple point and click wizard, or using a REST API, making the browser widely accessible and easy to use by researchers of all computational skill levels. In addition, EPIC-CoGe and data tracks are easily embedded in other websites and JBrowse instances.

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EPIC-CoGe: Managing and analyzing genomic data

Abstract

ASJC Scopus subject areas

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