[Bioperl-l] Genbank parser
jason.stajich at duke.edu
Tue Nov 1 17:47:50 EST 2005
Bio::SeqIO parses genbank files.
There is a spliced_seq method to splice CDS sequence out from a set of
See the HOWTOs for sequence introduction and feature and annotation
and particularly the tutorial as well:
On Oct 30, 2005, at 8:35 PM, Bingshan Li wrote:
> Hi All,
> I am new to Bioperl and recently found it has a lot of useful
> modules. I wrote a perl script to extract all protein sequences and
> corresponding coding sequences from Genbank files. But I found some
> bugs and it's hard to make sue my script is bug free after several
> revision. I am wondering if there are some modules and specific
> functions to use to fulfill my requirement. Does anybody have
> similar code to share with? Most bugs come from multiple segments
> of coding sequences and some cds sequences are on the minus strand.
> Thanks a lot!
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
More information about the Bioperl-l