[Bioperl-l] NCBI's seq_gene.md file

Sean Davis sdavis2 at mail.nih.gov
Mon Mar 6 12:15:52 EST 2006


Ryan,

I don't remember the exact details of the .md format, but it might be
straightforward to parse it into a gff format?  There are tools for dealing
with gff files from bioperl as well as many other tools, as the gff format
has become pretty standard.

Sean


On 3/6/06 11:39 AM, "Brian Osborne" <osborne1 at optonline.net> wrote:

> Ryan,
> 
> No, I don't think so.
> 
> Brian O.
> 
> 
> On 3/6/06 9:58 AM, "Ryan Golhar" <golharam at umdnj.edu> wrote:
> 
>> There is a file NCBI has for every organism called seq_gene.md.  It
>> contains a list of the all the Genes names, chromosome locations, exons,
>> introns, protein, strand, contig, etc.
>> 
>> I can parse this easily, but was wondering if there is a bioperl module
>> for this?
>> 
>> Ryan
>> 
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> 
> 
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