News

Biopython 1.61 released

Source distributions and Windows installers for Biopython 1.61 are now available from the downloads page on the Biopython website and from the Python Package Index (PyPI). The updated Biopython Tutorial and Cookbook is online (PDF). Platforms/Deployment We currently support Python … Continue reading →

Travis-CI for Testing

BioRuby, Biopython and BioPerl are now using Travis-CI.org, a hosted continuous integration service for the open source community, to run their unit tests automatically whenever their GitHub repositories are updated. Continue reading →

Biopython 1.60 released

Source distributions and Windows installers for Biopython 1.60 are now available from the downloads page on the Biopython website and from the Python Package Index (PyPI). Platforms/Deployment We currently support Python 2.5, 2.6 and 2.7 and also test under Jython … Continue reading →

Students selected for GSoC

Hello all, I’m very pleased and excited to announce that the Open Bioinformatics Foundation has selected 5 very capable students to work on OBF projects this summer as part of the Google Summer of Code (GSoC) program. The accepted students, … Continue reading →

Cross-links in GenomeDiagram

I’ve just finished writing up an example for the Biopython Tutorial of the new GenomeDiagram functionality added in Biopython 1.59. You can now control the start and end points of individual tracks, and you can add cross-links between regions of … Continue reading →

Biopython 1.59 released

Source distributions and Windows installers for Biopython 1.59 are now available from the downloads page on the Biopython website and from the Python Package Index (PyPI). Continue reading →

Chromosome Diagrams in Biopython

One of the new things coming in Biopython 1.59 is improved chromosome diagrams, something you may have seen via Twitter. I’ve just been updating the Biopython Tutorial (current version here, PDF) to include an example drawing this: Here’s a PDF … Continue reading →

Biopython 1.58 released

Source distributions and Windows installers for Biopython 1.58 are available from the downloads page on the Biopython website and from the Python Package Index (PyPI). A new interface and parsers for the PAML (Phylogenetic Analysis by Maximum Likelihood) package of … Continue reading →

Biopython 1.57 released

The Biopython community is pleased to announce the release of Biopython 1.57. Source distributions and Windows installers are available from the downloads page on the Biopython website and from the Python Package Index. Bio.SeqIO now includes an index_db() function which … Continue reading →

OBF and Google Summer of Code 2011

Google announced today the Open Bioinformatics Foundation (OBF) has been accepted as a mentoring organization for the 2011 Google Summer of Code! Continue reading →

gmane.comp.lang.perl.bio.general

• Re: sets of sequences - how to read?
• Re: Downloading annotated Gene nucleotide fasta files
• Re: Downloading annotated Gene nucleotide fasta files
• Downloading annotated Gene nucleotide fasta files
• Re: sets of sequences - how to read?
• Re: Problem compiling Bio::DB::Sam
• Re: sets of sequences - how to read?
• Re: [Biojava-l] Workshop on Sustainable Software for Science: Practice and Experiences
• Re: Workshop on Sustainable Software for Science: Practice and Experiences
• Re: Problem compiling Bio::DB::Sam
• Problem compiling Bio::DB::Sam
• Re: Workshop on Sustainable Software for Science: Practice and Experiences
• Re: Workshop on Sustainable Software for Science: Practiceand Experiences
• sets of sequences - how to read?
• blastxml
• Re: Bioperl-live has (near) empty Bio::Root::Root?
• Workshop on Sustainable Software for Science: Practiceand Experiences
• Extracting matching subsequence from pairwise alignment
• Re: Bio::SeqIO doesn't write all gbk sequencesfromBio::DB::GenBank
• Bio::SeqIO doesn't write all gbk sequences fromBio::DB::GenBank
• Wiki work, Template:Doclink