Friday, November 30, 2012

BioJava 3.0.5 released

BioJava 3.0.5 has been released and is available from as well as from the BioJava maven repository at .

New Features:

- New parser for CATH classification

- New parser for Stockholm file format

- Significantly improved representation of biological assemblies of protein structures. Now can re-create biological assembly from asymmetric unit

- Several bug fixes

Thanks to Daniel Asarnow for contributing the CATH parser and Amr Al Hossary and Marco Vaz for their contributions to the Stockholm parser.

Thursday, November 29, 2012

The PLOS Computational Biology Software Section

PLOS Computational Biology has been accepting and publishing so call Software Articles for about a year now. The articles that have been released under this category span a wide range of different topics in computational biology.  In today's editorial, Hilmar Lapp and I are providing a brief overview of what has been published  so far and describe some of the ideas behind the Software section.