BioJava

I’m pleased to announce the acceptance of OBF’s 2010 Google Summer of Code students, listed in alphabetical order with their project titles and primary mentors: Mark Chapman (PM Andreas Prlic) – Improvements to BioJava including Implementation of Multiple Sequence Alignment … Continue reading →

O|B|F is in Google Summer of Code, student applications due to Google April 9, 2010.

O|B|F is in Google Summer of Code, student applications due to Google April 9, 2010. Continue reading →

I’m delighted to announce an open access publication in Nucleic Acids Research describing the FASTQ file format based on the conventions agreed by the OBF projects: The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ … Continue reading →

I’m delighted to announce an open access publication in Nucleic Acids Research describing the FASTQ file format based on the conventions agreed by the OBF projects: The Sanger FASTQ file format for sequences with quality scores, and the ... [More] Solexa/Illumina FASTQ variants Peter J. A. Cock (Biopython), Christopher J. Fields (BioPerl), Naohisa Goto (BioRuby), Michael L. Heuer (BioJava) [...] [Less]

BioJava 1.5 has been released and is available for download from our website at http://biojava.org/ Thanks to everyone who has made contributions, and in particular to those who have spent many hours testing our new file parsers with every ... [More] combination of scenarios under the sun. In addition to numerous bugfixes and enhancements, the highlights of this release are brand new parsers [...] [Less]

BioJava 1.5 beta 3 has been released. This will be the final beta before an official BioJava 1.5. The source, binaries and docs can be obtained from the biojava download page

Just in time for the new year biojava-1.5 beta2 has been released. The  source, binaries and docs for the release can be obtained from the biojava site. The API docs are also available on line. There has been quite a few more bugfixes since the first beta which will make it more stable. There is [...]

A beta distribution of the much awaited biojava 1.5 has been released. The  source, binaries and docs for the release can be obtained from the biojava site. The API docs are also available on line. There are significant new features in this release: ... [More] Biojavax: The biojavax packages are extensions to the basic biojava. They give access to more [...] [Less]

As much as we hate to admit it BioJava does contain the odd bug. Some are very odd indeed. To help us track bugs and requests for enhancement we have begun to use the Bugzilla bug tracking system. Please use it if you would like to report a new bug or view open bugs.