[BiO BB] A question about profile database in psi-blast.

[Iddo Friedberg]

Slight correction: FFAS aligns a /profile/ against a profile database, 
not a /sequence/ against a profile database. More sensitive that way.

./I


Rong Chen wrote:
> Hi,
> 
> Normally, we align a profile against a sequence database in psi-blast. I
> heard that we could also cat all profiles to create a database, and align
> a sequence against this profile database. Did anyone hear anything about
> it? Is it a new program or a new option in psi-blast?
> 
> Thank you.
> 
> Rong
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Rong Chen, Ph.D.
> Scientist
> Protein Engineering
> Accelrys Inc.
> San Diego, CA 92121
> Tel: (858)799-5304(office)
> E-mail: rong at zlab.bu.edu   http://zlab.bu.edu/~rong
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> 
> 
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-- 
Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037
USA
Tel: +1 (858) 646 3100 x3516
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http://ffas.ljcrf.edu/~iddo