[Bioperl-l] a question on gene retrieval

Brian Osborne bosborne11 at verizon.net
Wed Nov 22 09:04:35 EST 2006


Svetlana,

There's a page discussing these sorts of questions at the Bioperl Wiki:

http://www.bioperl.org/wiki/Getting_Genomic_Sequences

It sounds like you just want to compare pairs of coordinates initially, not
retrieve sequence, yes?

Brian O.


On 11/22/06 6:20 AM, "Svetlana Bulashevska"
<s.bulashevska at dkfz-heidelberg.de> wrote:

> Dear Sirs,
> I am very new to bioperl and I would highly appreciate if you could
> advise me on the following.
> I have the locations of the sequences (like chr5|-1|102826728|102828399)
> in the human genome
> and I would like to retrieve what known genes lay in the close proximity
> to the sequences (they can also overlap with the sequence). What bioperl
> modules and classes should I use?
> Thank you very much,
> Svetlana Bulashevska.
> 
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