title: Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics.
abstract: CONCLUSIONS
  Biogem provides a software development environment for the Ruby programming language, which encourages community-based software development for bioinformatics while lowering the barrier to entry and encouraging best practices. Biogem, with its targeted modular and decentralized approach, software generator, tools and tight web integration, is an improved general model for scaling up collaborative open source software development in bioinformatics.
  
  
  BACKGROUND
  Biogem and modules are free and are OSS. Biogem runs on all systems that support recent versions of Ruby, including Linux, Mac OS X and Windows. Further information at http://www.biogems.info. A tutorial is available at http://www.biogems.info/howto.html
  
  
  BACKGROUND
  bonnal@ingm.org.
authors.affiliation: Integrative Biology Program, Istituto Nazionale Genetica Molecolare, Milan 20122, Italy. bonnal@ingm.org
authors.forename: Raoul J P
authors.initials: RJ
authors.lastname: Bonnal
authors.forename: Jan
authors.initials: J
authors.lastname: Aerts
authors.forename: George
authors.initials: G
authors.lastname: Githinji
authors.forename: Naohisa
authors.initials: N
authors.lastname: Goto
authors.forename: Dan
authors.initials: D
authors.lastname: MacLean
authors.forename: Chase A
authors.initials: CA
authors.lastname: Miller
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Mishima
authors.forename: Massimiliano
authors.initials: M
authors.lastname: Pagani
authors.forename: Ricardo
authors.initials: R
authors.lastname: Ramirez-Gonzalez
authors.forename: Geert
authors.initials: G
authors.lastname: Smant
authors.forename: Francesco
authors.initials: F
authors.lastname: Strozzi
authors.forename: Rob
authors.initials: R
authors.lastname: Syme
authors.forename: Rutger
authors.initials: R
authors.lastname: Vos
authors.forename: Trevor J
authors.initials: TJ
authors.lastname: Wennblom
authors.forename: Ben J
authors.initials: BJ
authors.lastname: Woodcroft
authors.forename: Toshiaki
authors.initials: T
authors.lastname: Katayama
authors.forename: Pjotr
authors.initials: P
authors.lastname: Prins
mesh_terms: D019295:Computational Biology / Q000379:methods*; D020407:Internet; D011381:Programming Languages; D012984:Software