Archive for the ‘Community’ Category
Thursday, August 26th, 2010
After 10 years of development, the BioRuby paper is finally published in the Bioinformatics journal. The article is open access, so please take a look.
BioRuby: Bioinformatics software for the Ruby programming language
Naohisa Goto, Pjotr Prins, Mitsuteru Nakao, Raoul Bonnal, Jan Aerts and Toshiaki Katayama
Bioinformatics 2010; doi: 10.1093/bioinformatics/btq475
Posted in BioRuby, Code, Community, Development, Documentation, OBF, OBF Projects | No Comments »
Thursday, May 20th, 2010
The Biopython team is proud to announce Biopython 1.54, a new stable release of the Biopython library. Biopython 1.54 comes five months after our last release and brings new features, tweaks to some established functions and the usual collection of bug fixes.
This is the first stable release to feature ...
Posted in Biopython, Code, Community, Development, General, Google Summer of Code, OBF, OBF Projects | No Comments »
Friday, May 14th, 2010
BioPerl has migrated to git and GitHub! We have also set up a mirror set of several key repositories at the great public git hosting site repo.or.cz.
If you are a current BioPerl developer (had a previous account for direct access to our prior Subversion repository), please sign up for a GitHub ...
Posted in BioPerl, Blogroll, Code, Community, Development, Documentation, General, OBF, OBF Projects | 1 Comment »
Sunday, May 2nd, 2010
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 Algorithms
Jianjiong Gao (PM Peter Rose) - BioJava Packages for Identification, Classification, ...
Posted in BioDAS, BioJava, BioLib, BioMOBY, BioPerl, BioRuby, Biopython, Blipkit, Community, Development, Google Summer of Code, OBDA / BioSQL, OBF, OBF Projects | No Comments »
Friday, April 30th, 2010
In another quirk to the FASTQ story, recent Illumina FASTQ files don't actually use the full range of PHRED scores - and a score of 2 has a special meaning, The Read Segment Quality Control Indicator (RSQCI, encoded as 'B').
Hats off to Dr Torsten Seemann for raising awareness of this ...
Posted in Biopython, Blogroll, Code, Community, Development, Documentation, HOWTO, OBF, OBF Projects | No Comments »
Wednesday, April 7th, 2010
Just a friendly reminder that abstracts for BOSC 2010 are due next Thursday, April 15. See the BOSC web site at http://www.open-bio.org/wiki/BOSC_2010 for details. Submissions will only be accepted electronically at http://events.open-bio.org/BOSC2010/openconf.php.
Graduate students, don't forget we are offering $250 student travel awards this year. Be sure to check the box ...
Posted in BOSC/ISMB, Community, General, Mailing lists, OBF, OBF Projects | No Comments »
Sunday, March 21st, 2010
The Open Bioinformatics Foundation has been accepted as a mentoring organization for this summer's Google Summer of Code. Our list of project ideas and mentors is linked from the O|B|F GSoC page.
Student applications must be submitted to Google by April 9, 2010, see the official GSoC 2010 FAQ. That is ...
Posted in BioDAS, BioJava, BioLib, BioMOBY, BioPerl, BioRuby, Biopython, Blipkit, Community, Google Summer of Code, OBDA / BioSQL, OBF, OBF Projects | No Comments »
Tuesday, March 2nd, 2010
Abstract submissions for the 11th Annual Bioinformatics Open Source Conference (BOSC 2010) are now open.
At-a-glance
BOSC is an ISMB 2010 Special Interest Group (SIG)
Date: July 9-10, 2010
Location: Boston, Massachusetts, USA
BOSC 2010 web site: http://www.open-bio.org/wiki/BOSC_2010
Abstract submission via Open Conference System site: http://events.open-bio.org/BOSC2010/openconf.php
E-mail: bosc@open-bio.org
Bosc-announce list: http://lists.open-bio.org/mailman/listinfo/bosc-announce
Important Dates
April 15: Abstract deadline
May 5: Notification ...
Posted in BOSC/ISMB, Community, OBF, OBF Projects | Comments Off
Monday, January 18th, 2010
BioPerl developers and users attended the BioPerl satellite meeting on January 13th, just prior to the GMOD Meeting. Several items were covered on the agenda:
In order to start addressing whole genome data with more lightweight objects, we are planning on setting up a lightweight Bio::SeqI object that has a flexible DB ...
Posted in BioPerl, Code, Community, Development, OBF, OBF Projects | No Comments »
Friday, December 18th, 2009
BOSC 2010 is currently in the planning stages. It will be held for 2 days in conjunction with the 18th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2010) in Boston, Massachusetts, USA. The dates of BOSC 2010 are July 9-10; the main ISMB Conference runs July 11-13, ...
Posted in BOSC/ISMB, Community, General, OBF, OBF Projects | No Comments »