Instructions on how to install BioPerl on Mac OS X have been added to the Wiki, specifically at the Getting Bioperl section. Thanks to Koen van der Drift for contributing with this info. We continue to encourage people who is taking care of creating packages for other platforms (specific Linux distributions, Windows, etc.) to put in the wiki the necessary documentation about installing BioPerl and Perl modules in your favorite OS/distributions.

(reposting this news from O|B|F News) I am pleased to announce the release of a new website for BioPerl. The site is based on the mediawiki software that was developed for the wikipedia project. We intend the site to be a place for community input on documentation and design for the BioPerl project.

I am pleased to announce the release of a new website for BioPerl. The site is based on the mediawiki software that was developed for the wikipedia project. We intend the site to be a place for community input on documentation and design for the BioPerl project. There is also a fair amount of documentation started surrounding bioinformatics tools and techniques applicable to using BioPerl and some of the authors who created these resources.

I’ve been updating the Publications page on the wiki to keep track of the number of pubs and projects which use BioPerl. Google scholar seems to get a lot of these correct, sometimes there are redundancies, but generally has been a good place to find this list. The other way is to go to each of the journal’s home pages, and search for “BioPerl” in the content, that can be tedious though….

I installed the new Regulus theme, comments are welcome as to whether or not you like it. It is possible to customize the color scheme and top-image as well if there are suggestions - perhaps we’ll build a header which incorporates our logo once that is decided.

I’ve updated the wordpress install to 2.0 which has a lot more features and seems to be better setup for permissions and what not. I also upgraded the wiki to 1.5.5 to deal with some potential security holes with WMF files. I also changed the permalink structure so that the links are informative by date and post-slug. I like this much more.

The Developer Release (1.5.1) of BioPerl has been brought back into the FreeBSD Ports Collection. For instructions on how to install it, please take a look into the Getting Bioperl section of the BioPerl Wiki.

Welcome to new developer Torsten Seemann from Victorian Bioinformatics Consortium. Torsten has taken on the role of primary maintainer of Bio::Tools::Run::StandAloneBlast.

Upgraded to mediawiki 1.5.2 – all seems to be working, but do notify us if it isn’t.

index.php is no longer part of the wiki URL. Yah! So http://bioperl.open-bio.org/wiki/Project_priority_list instead of http://bioperl.open-bio.org/wiki/index.php/Project_priority_list I also installed the interwiki table so that inter-wiki linking is much easier. See this page: http://bioperl.open-bio.org/wiki/Special:Interwiki For example to link to wikipedia you simply need to use the ‘‘‘wp’’’ prefix.

I added the Biblio plugin for mediawiki so that we could simplify how papers are referenced in our pages. I found this as part of the wikiomics project. See the help page and the Bioperl wiki publications page for examples.