The Bio-Community Perl toolkit for microbial ecology.
Where this comes from
- Record sourced from PubMed, PMID 24618462.
- Also identified by DOI 10.1093/bioinformatics/btu130 and PMC identifier 4071200.
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Abstract
The development of bioinformatic solutions for microbial ecology in Perl is limited by the lack of modules to represent and manipulate microbial community profiles from amplicon and meta-omics studies. Here we introduce Bio-Community, an open-source, collaborative toolkit that extends BioPerl. Bio-Community interfaces with commonly used programs using various file formats, including BIOM, and provides operations such as rarefaction and taxonomic summaries. Bio-Community will help bioinformaticians to quickly piece together custom analysis pipelines and develop novel software. Availability an implementation: Bio-Community is cross-platform Perl code available from http://search.cpan.org/dist/Bio-Community under the Perl license. A readme file describes software installation and how to contribute.
Medical subject headings
- Ecosystem