Tag Archives: BioPerl

Sanger FASTQ format and the Solexa/Illumina variants

Posted on December 17, 2009 by Peter

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 →

Posted in BioJava, BioPerl, Biopython, BioRuby, Blogroll, Community, Development, Documentation, General, OBF, OBF Projects | Tagged , , , , , | Leave a comment

BioPerl interview in latest FLOSS Weekly

Posted on November 22, 2009 by Chris Fields

Two of the core BioPerl developers, Jason Stajich and Chris Fields, were interviewed by FLOSS Weekly.  The interview is now available as an MP3 on the FLOSS Weekly website; several streaming versions (including podcast) are also available.

Posted in BioPerl, BOSC/ISMB, Code, Community, Development, General, OBF, OBF Projects | Tagged | Leave a comment

BioPerl core 1.6.1 PPM available

Posted on October 10, 2009 by Chris Fields

BioPerl 1.6.1 is now available for ActivePerl as a PPM, instructions for downloading can be found on the BioPerl wiki. This has been tested only for ActivePerl 5.10 and above, so any feedback with older versions of BioPerl would be … Continue reading →

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First 1.6.1 alphas of BioPerl-Run, BioPerl-DB, BioPerl-Network

Posted on October 1, 2009 by Chris Fields

Running a bit late on this, so just a quick note that the first alphas for BioPerl-Run, BioPerl-DB, and BioPerl-Network have been uploaded to CPAN: BioPerl-Run BioPerl-DB BioPerl-Network They can also be downloaded from the BioPerl website: http://bioperl.org/DIST/RC/ This is … Continue reading →

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BioPerl 1.6.1 released

Posted on September 29, 2009 by Chris Fields

We are pleased to announce the immediate availability of BioPerl 1.6.1, the latest release of BioPerl’s core code. You can grab it here: Via CPAN: http://search.cpan.org/~cjfields/BioPerl-1.6.1/ Via the BioPerl website: http://bioperl.org/DIST/BioPerl-1.6.1.tar.bz2 http://bioperl.org/DIST/BioPerl-1.6.1.tar.gz http://bioperl.org/DIST/BioPerl-1.6.1.zip The PPM for Windows should also finally … Continue reading →

Posted in BioPerl, Community, Development, Documentation, General, OBF, OBF Projects | Tagged , | 1 Comment

Release 1.6 of BioPerl-run, BioPerl-db, BioPerl-network

Posted on February 26, 2009 by Chris Fields

All, I am proud to announce that the 1.6 release for BioPerl-run, BioPerl- db, and BioPerl-network are now available by direct download and via CPAN. These are designated as 1.006000, with a requirement for BioPerl 1.6 and higher (1.006000). FIXED: … Continue reading →

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BioPerl 1.6 released

Posted on January 25, 2009 by Jason Stajich

Release Pumpkin Chris Fields has announced the release of BioPerl 1.6 – the first stable release in a several years containing many significant improvements and bug fixes. I am proud to announce, on behalf of the BioPerl core developers, that … Continue reading →

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BioPerl 1.6 RC4

Posted on January 23, 2009 by Jason Stajich

RC4 is up, we are days away from final release…

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BioPerl branched for 1.6, RC1 is up

Posted on December 26, 2008 by Jason Stajich

BioPerl has branched for 1.6 and the RC1 is up for testing as Chris announced.

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BioPerl 1.6 preparations

Posted on December 9, 2008 by Jason Stajich

BioPerl is preparing for version 1.6 release in the coming months. As part of this some restructuring and simplification of the packaging is occurring. Continue reading →

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