MicrobeDB: a locally maintainable database of microbial genomic sequences

Abstract

Summary: 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requires the general organization and comparison of tens to thousands of genomes both from public repositories and unpublished sources.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/Contact: morgan.g.i.langille@gmail.com