Archive for the ‘BioPerl’ Category
Tuesday, February 8th, 2005
Brian Osborne and James Thompson have written a Bioperl HOWTO for beginners, for those who are interested in learning about Bioperl but have done very little programmming. Topics include creating a Sequence object, I/O and files, retrieving from Genbank, and using the Sequence object.
Posted in BioPerl | Comments Off
Saturday, January 29th, 2005
Bioperl 1.5.0 Developer's release is available for download.
===============================================
http://bioperl.org/DIST/bioperl-1.5.0.tar.bz2 425ac55ecbb4339b7b532ba6d429bb40
http://bioperl.org/DIST/bioperl-1.5.0.tar.gz 172472f0675de9a583432e21c9b1b5fc
http://bioperl.org/DIST/bioperl-1.5.0.zip 3febcd2445a7393c65981a6f9f13a9ed
We'll update the website to reflect this new release.
The odd-numbered releases are called developer releases and are not
deposited on CPAN. Please note that the API in 1.5.0 may change before
the ...
Posted in BioPerl | Comments Off
Wednesday, January 12th, 2005
Release candidate 2 of Bioperl 1.5.0 is ready for downloading and testing.
Please report back to the bioperl list with any problems. We would like to make a developer release by the end of January 2005.
http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.gz
http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.bz2
http://bioperl.org/DIST/bioperl-1.5.0-RC2.zip
Posted in BioPerl | Comments Off
Wednesday, December 29th, 2004
I just wanted to use the end of the year as a chance to reflect on what
we've accomplished in 2004 and think about what 2005 holds for Bioperl.
List Message
Posted in BioPerl | No Comments »
Sunday, November 14th, 2004
Bioperl developers are preparing a 1.5 release, you can grab the pre-release for testing at http://bioperl.org/DIST. We would greatly appreciate you downloading and testing this code before it is released by running 'make test'.
See Aaron's post announcing the RC1 candidate.
Posted in BioPerl | Comments Off
Tuesday, April 6th, 2004
The Mailing list post
Continuing on the BioJava Bootcamp of 2003, The Quebec Bioinformatics
Network (BioneQ) is organizing its first BioPerl Bootcamp, to be held at the
Universite de Montreal from June 21-25 2004.
The invited speakers are leaders in the use of Perl in bioinformatics and
development of BioPerl:
Aaron Mackey (U. of Pennsylvania)
Jason Stajich ...
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Friday, February 20th, 2004
Bioperl version 1.4 for Windows is available. Thanks once again to Nigam Shah for creating and testing the PPM and PPD files.
Posted in BioPerl | Comments Off
Wednesday, February 18th, 2004
BioKnoppix is a new live CD linux, based on
KNOPPIX, with EMBOSS 2.8.0, jemboss, artemis, clustalx, Cn3D, ImageJ, BioPython, Rasmol, Bioperl, Bioconductor. It being made available by The University of Puerto Rico High Performance Computing facility (HPCf) and the Puerto Rico Biomedical Research Infrastructure Network (BRIN-PR). Great stuff!
Posted in BioPerl, Biopython, General | Comments Off
Tuesday, December 23rd, 2003
The stable Bioperl release 1.4 is available for immediate use at:
http://bioperl.org/DIST.
We are releasing simultaneously three modules:
bioperl-core - core bioperl modules (
gz
b2z)
bioperl-ext - C compiled extensions (
gz
b2z)
bioperl-run - wrappers for external programs (
gz
b2z)
They will also appear shortly at
the IUBIO mirror (later today)
and in
CPAN.
Remember, all the external modules needed by ...
Posted in BioPerl | Comments Off
Wednesday, November 26th, 2003
Todd Harris has released
GD::SVG
in
CPAN. This module implements support for most features of GD that are used by Bio::Graphics (together with the
SVG module).
Try out the publication publication quality graphics
directly from
CVS and help to squash the last bugs before stable bioperl release. See all_glyphs.pl and dynamic_glyphs.pl in examples/biographics directory.
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