[BioPython] Human genome

[Eirik Sønneland]

Hi & thanks for replying!

Yes, I'm aware of the cookbook and the links to NCBI, but it doesn't 
seem to be any database which is only for human, as there is for 
forexample "Drosophila genom".
Interesting aspect that you've changed to standalone blast and that it 
isn't faster...hmmm,


regards
Eirik

DroMartina wrote:

> Hallo Eirik,
>
> have a look at the cookbook:
> http://www.biopython.org/docs/tutorial/Tutorial004.html#toc10
>
> I just tried to do the same, but each query took 1-2min. So I switched 
> to standalone Blast, but its not faster yet.
>
> Martina
>
> Eirik Sønneland wrote:
>
>> Hi!
>>
>> Need to Blast my sequence file against the human genome. Have tried 
>> to search http://www.ncbi.nlm.nih.gov/BLAST/docs/netblast.html for 
>> finding this database to put into the following code (as second 
>> argument):
>>
>> NCBIWWW.qblast('blastn', '???', f_record),
>>
>> Have anybody knowledge  of the name of this parameter ??
>>
>> Would be highly appreciated!
>>
>> cheers,
>> Eirik
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>