title: BioMAJ: a flexible framework for databanks synchronization and processing.
abstract: Large- and medium-scale computational molecular biology projects require accurate bioinformatics software and numerous heterogeneous biological databanks, which are distributed around the world. BioMAJ provides a flexible, robust, fully automated environment for managing such massive amounts of data. The JAVA application enables automation of the data update cycle process and supervision of the locally mirrored data repository. We have developed workflows that handle some of the most commonly used bioinformatics databases. A set of scripts is also available for post-synchronization data treatment consisting of indexation or format conversion (for NCBI blast, SRS, EMBOSS, GCG, etc.). BioMAJ can be easily extended by personal homemade processing scripts. Source history can be kept via html reports containing statements of locally managed databanks.
  
  
  BACKGROUND
  http://biomaj.genouest.org. BioMAJ is free open software. It is freely available under the CECILL version 2 license.
authors.affiliation: IRISA/INRIA, Symbiose Project, Unité de Biométrie et Intelligence Artificielle, UR875, INRA, F-31320 Castanet-Tolosan, France.
authors.forename: Olivier
authors.initials: O
authors.lastname: Filangi
authors.forename: Yoann
authors.initials: Y
authors.lastname: Beausse
authors.forename: Anthony
authors.initials: A
authors.lastname: Assi
authors.forename: Ludovic
authors.initials: L
authors.lastname: Legrand
authors.forename: Jean-Marc
authors.initials: JM
authors.lastname: Larré
authors.forename: Véronique
authors.initials: V
authors.lastname: Martin
authors.forename: Olivier
authors.initials: O
authors.lastname: Collin
authors.forename: Christophe
authors.initials: C
authors.lastname: Caron
authors.forename: Hugues
authors.initials: H
authors.lastname: Leroy
authors.forename: David
authors.initials: D
authors.lastname: Allouche
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods; D003628:Database Management Systems; D030541:Databases, Genetic; D016247:Information Storage and Retrieval / Q000379:methods*; D011381:Programming Languages; D012984:Software; D014584:User-Computer Interface