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MetQy – an R package to query metabolic functions of genes and genomes
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Martinez-Vernon, Andrea, Farrell, Frederick and Soyer, Orkun S. (2018) MetQy – an R package to query metabolic functions of genes and genomes. Bioinformatics, 34 (23). pp. 4134-4137. doi:10.1093/bioinformatics/bty447 ISSN 1367-4803.
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WRAP-MetQy–R-package-query-metabolic-Soyer-2018.pdf - Published Version - Requires a PDF viewer. Available under License Creative Commons Attribution 4.0. Download (784Kb) | Preview |
Official URL: http://dx.doi.org/10.1093/bioinformatics/bty447
Abstract
Summary:
With the rapid accumulation of sequencing data from genomic and metagenomic studies, there is an acute need for better tools that facilitate their analyses against biological functions. To this end, we developed MetQy, an open–source R package designed for query–based analysis of functional units in [meta]genomes and/or sets of genes using the The Kyoto Encyclopedia of Genes and Genomes (KEGG). Furthermore, MetQy contains visualisation and analysis tools and facilitates KEGG’s flat file manipulation. Thus, MetQy enables better understanding of metabolic capabilities of known genomes or user–specified [meta]genomes by using the available information and can help guide studies in microbial ecology, metabolic engineering and synthetic biology.
Availability and Implementation:
The MetQy R package is freely available and can be downloaded from our group’s website (http://osslab.lifesci.warwick.ac.uk) or GitHub (https://github.com/OSS-Lab/MetQy).
Item Type: | Journal Article | ||||||||
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Divisions: | Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) | ||||||||
Journal or Publication Title: | Bioinformatics | ||||||||
Publisher: | Oxford University Press | ||||||||
ISSN: | 1367-4803 | ||||||||
Official Date: | 1 December 2018 | ||||||||
Dates: |
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Volume: | 34 | ||||||||
Number: | 23 | ||||||||
Page Range: | pp. 4134-4137 | ||||||||
DOI: | 10.1093/bioinformatics/bty447 | ||||||||
Status: | Peer Reviewed | ||||||||
Publication Status: | Published | ||||||||
Access rights to Published version: | Open Access (Creative Commons) | ||||||||
Date of first compliant deposit: | 8 June 2018 | ||||||||
Date of first compliant Open Access: | 8 June 2018 |
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