[Biopython-dev] powerful Alignment class in Biopython?

Frank fkauff at duke.edu
Thu Jan 11 09:27:25 UTC 2007

Hi Janek,

then Nexus parser in Biopython (for which I still haven't written any
documentation yet...) basically holds an alignment, and has some methods
that deal with basic alignment functionality. If you're going to work on
a more sophisticated alignment class, maybe we should try to get Nexus
class and alignment class work smoothly together.


On Thu, 2007-01-11 at 09:52 +0100, Jan Kosinski wrote:
> Hi,
> Is anyone going to develop or developing now an Alignment class in
> Biopython as powerful as for example SimpleAlign in Bioperl? Look here
> for instance for methods available in Bioperl
> http://doc.bioperl.org/releases/bioperl-1.2/Bio/SimpleAlign.html.
> The reason I am asking is that I do not know if I should start working
> on more functional subclass of biopython Alignment class (I do not want
> to come back to Perl ;-)...
> Regards,
> Janek
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