[BioPython] Need help!!!

[Cymon J. Cox]

Hi Alper,

On Thu, 2006-04-20 at 05:59 -0700, alper soyler wrote:
> Hi All,
>  
>  I am new to Biopython and have a question. I want to construct a pyhlogenetic
>  profile for one organism's proteins. I want to give my protein to blast to
>  search one organism's genome (e.g. Homo sapiens) instead of whole genbank
>  database. How can I solve my problem? Thank you in advance.

Assuming you want to do this locally, you'll need to download you target
genome, format it with the BLAST distribution programme 'formatdb', and
then feed your query and newly formatted genome BLAST database to
Bio.Blast.NCBIStandalone.

See http://biopython.org/docs/tutorial/Tutorial004.html#toc10
3.1.4  Running BLAST locally

for details,

Cheers, Cymon
____________________________________________________________________

Cymon J. Cox

Biometry and Molecular Research
Department of Zoology
Natural History Museum
Cromwell Road
London, SW7 5BD

Email: cy at cymon.org, c.cox at nhm.ac.uk, cymon.cox at googlemail.com 
Phone : +44 (0)20 7942 6981
HomePage : http://www.duke.edu/~cymon

-8.63/-6.77
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