MetQy – an R package to query metabolic functions of genes and genomes
| Autor: | Orkun S. Soyer, Fred Farrell, Andrea S. Martinez-Vernon |
|---|---|
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Statistics and Probability Computer science Flat file database Genomics Computational biology Biology computer.software_genre Biochemistry Genome Metabolic engineering 03 medical and health sciences Synthetic biology 0302 clinical medicine Microbial ecology KEGG Molecular Biology Gene 030304 developmental biology 0303 health sciences Computational Biology Applications Notes Computer Science Applications Visualization Computational Mathematics R package 030104 developmental biology Computational Theory and Mathematics Metagenomics Data mining Data and Text Mining computer Metabolic Networks and Pathways Software 030217 neurology & neurosurgery |
| Zdroj: | Bioinformatics |
| ISSN: | 1367-4803 |
| DOI: | 10.1101/215525 |
| Popis: | SummaryWith 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 ImplementationThe 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).ContactO.Soyer@warwick.ac.uk |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|