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MicrobeDB: a locally maintainable database of microbial genomic sequences.

  • Author(s): Langille, Morgan GI
  • Laird, Matthew R
  • Hsiao, William WL
  • Chiu, Terry A
  • Eisen, Jonathan A
  • Brinkman, Fiona SL
  • et al.
Abstract

Unlabelled

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requires the general organization and comparison of tens to thousands of genomes both from public repositories and unpublished sources.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/

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