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The Bio-Community Perl toolkit for microbial ecology #MMPMID24618462
Angly FE; Fields CJ; Tyson GW
Bioinformatics 2014[Jul]; 30 (13): 1926-7 PMID24618462show ga
Summary: 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.Contact:f.angly@uq.edu.auSupplementary information:Supplementary data are available at Bioinformatics online