Retriving sequences from large local databases

S.W. Rasmussen swr at seqtools.dk
Fri Apr 1 09:57:57 EST 2005


...and the seqtools software suite at http://www.seqtools.dk

Soeren W. Rasmussen

"David Mathog" <mathog at caltech.edu> wrote in message 
news:d1725m$1ka$1 at naig.caltech.edu...
> Rolf wrote:
>> I am running local blast on different databases. This works perfectly.
>> The problem comes when I want to retrieve sequences from the large
>> (and practically not possible to open) databases.
>> Can this be done through the BioEdit program?
>> Other programs?
>
> I don't know about BioEdit but fastacmd, which is part of the NCBI
> toolkit, can do this.
>
> So can the demo program in my blastdb_api package.  You can pick
> up the source code for that here:
>
>   ftp://saf.bio.caltech.edu/pub/software/molbio/blastdb_api.tar.gz
>
> Regards,
>
> David Mathog
> mathog at caltech.edu
> ---
> 




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