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Bioinformatics. 2012 Jul 15;28(14):1947-8. doi: 10.1093/bioinformatics/bts273. Epub 2012 May 9.

MicrobeDB: a locally maintainable database of microbial genomic sequences.

Author information

1
Department of Biochemistry & Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada. morgan.g.i.langille@gmail.com

Abstract

Analysis of microbial genomes often requires the general organization and comparison of tens to thousands of genomes both from public repositories and unpublished sources. MicrobeDB provides a foundation for such projects by the automation of downloading published, completed bacterial and archaeal genomes from key sources, parsing annotations of all genomes (both public and private) into a local database, and allowing interaction with the database through an easy to use programming interface. MicrobeDB creates a simple to use, easy to maintain, centralized local resource for various large-scale comparative genomic analyses and a back-end for future microbial application design.

AVAILABILITY:

MicrobeDB is freely available under the GNU-GPL at: http://github.com/mlangill/microbedb/

PMID:
22576174
PMCID:
PMC3389766
DOI:
10.1093/bioinformatics/bts273
[Indexed for MEDLINE]
Free PMC Article

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