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.

I’ve updated the code for Bio::Tree::Node so that each_Descendent can return the nodes in alphabetical order. This is achieved by pasing in the string ‘alpha’ (for alphabetical) or ‘revalpha’ (for reverse alphabetical). For internal nodes, they are sorted in order of the min or max (alphabetically) node in the sub-clade.

The Frequently Asked Questions have been entered into the Wiki and is available.

After halloween party at our house from a few years ago there was a little more public direction on who to ask for Bioperl help…

According to NCBI - BlastXML (and ASN.1) is the only guaranteed always parseable report format that is provided by their web CGI script.

I’ve started uploading some logo ideas that I’ve been playing with. Potential_Logos. These include logos for the blog front page as well as the Wiki site (and generally a BioPerl logo). O|B|F logos are welcome too.

I’ve started migrating content to the Wiki Site. I am hoping this will work out well. We need a couple of things. Decide on a theme for this site, customize it to make it a Bioperl style. Consider having a unifying style across all the O|B|F sites as Chris started doing with the foundation site.

We are pleased to announce the release of Biopython 1.41. Many improvements were made in Biopython during the eight months since the previous release, and the new release contains lots of bugfixes, improvements, new functionalities, and better documentation.

I am pleased to announce the 1.5.1 developer release of Bioperl.

Release Candidate 4 for bioperl 1.5.1 (Developer release) core, run, and ext packages is available. Several bug fixes went in last week so I’ve made what I hope to be the last release candidate before 1.5.1 goes out.

The 2005 Board of Directors meeting for the Open Bioinformatics Foundation was held on Thursday, June 24th 2005 in Detroit, MI USA at the site of the BOSC2005 meeting. This was a major meeting and represents the first attempt to build a governance platform for the organization as well as set up the mechanism for building a voting membership.