The Bio-Community Perl toolkit for microbial ecology

Angly, Florent E., Fields, Christopher J. and Tyson, Gene W. (2014) The Bio-Community Perl toolkit for microbial ecology. Bioinformatics, 30 13: 1926-1927. doi:10.1093/bioinformatics/btu130

Author Angly, Florent E.
Fields, Christopher J.
Tyson, Gene W.
Title The Bio-Community Perl toolkit for microbial ecology
Journal name Bioinformatics   Check publisher's open access policy
ISSN 1460-2059
Publication date 2014-07-01
Year available 2014
Sub-type Article (original research)
DOI 10.1093/bioinformatics/btu130
Open Access Status Not yet assessed
Volume 30
Issue 13
Start page 1926
End page 1927
Total pages 2
Place of publication Oxford, United Kingdom
Publisher Oxford University Press
Language eng
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.
Keyword Biochemical Research Methods
Biotechnology & Applied Microbiology
Computer Science, Interdisciplinary Applications
Mathematical & Computational Biology
Statistics & Probability
Biochemistry & Molecular Biology
Biotechnology & Applied Microbiology
Computer Science
Mathematical & Computational Biology
Q-Index Code CX
Q-Index Status Confirmed Code
Grant ID DE120101213
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
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