[Bioperl-l] Location mapping question

Jason Stajich jason.stajich at duke.edu
Wed Nov 9 13:36:56 EST 2005


To see it in action: here is a script which maps protein domain/FASTP  
hits back to the Genome.

The downside is this can be a little slow.


On Nov 9, 2005, at 1:17 PM, Sean Davis wrote:

> I think I have seen code to do this kind of thing--hence this  
> email--but I
> may be mistaken.  I have oligo sequences mapped to mRNAs by blat  
> and have
> blat alignments to the genome.  Is there a way to quickly align the  
> oligos
> to the genome given this information using a bioperl module.  (Like  
> I said,
> I just can't seem to find it).
> Thanks,
> Sean
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Jason Stajich
Duke University

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