[BioRuby] BioRuby 0.6.4 released

Toshiaki Katayama ktym at hgc.jp
Thu Sep 1 03:34:59 EDT 2005


We have released BioRuby 0.6.4 at


# Note that 0.6.3 was not announced as the some features
# made backward incompatible.

This release contains following improvements and a lot of bug fixes.

* siRNA designer class is contributed by Itoshi Nikaido.

* fastacmd wrapper is contributed by Shinji Shigenobu.

* bl2seq parser is contributed by Tomoaki Nishiyama.

* new application execution factory is provided.

* FlatFile class can accept Blast results, Spidey, Blat, Sim4 and
  some KEGG formats (KO, GLYCAN, REACTION).

* some methods are added to SPTr class proposed by Luca Pireddu.

* external2go parser is added. (lib/bio/db/go.rb)

* improved amino/nucleic data classes to have some handy methods.

* fixed hmmer parser (by Masashi Fujita) and remote execution of
  blast and fasta using GenomeNet.

* some English documentations are added. (doc/)

See ChangeLog file for more detail.

On 2005/08/31, at 22:52, GOTO Naohisa wrote:
> I put ./doc/Tutorial.rd into BioRuby CVS repository.

This document and the KEGG API manual are included in 0.6.4 release.

Toshiaki Katayama

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