RT Journal Article
SR Electronic
T1 MetQy – an R package to query metabolic functions of genes and genomes
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 215525
DO 10.1101/215525
A1 Andrea Martinez–Vernon
A1 Frederick Farrell
A1 Orkun S. Soyer
YR 2017
UL http://biorxiv.org/content/early/2017/11/16/215525.abstract
AB 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) database. Furthermore, MetQy contains visualization 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).Contact O.Soyer{at}warwick.ac.uk