[EMBOSS] Seqret and searching a database with entries in a file

[david.bauer at bayerhealthcare.com]

Hi Sudeep,

if you add a "@" character in front of a filename, EMBOSS interprets this 
as a "file of filenames".
So you can put all your IDs including the database name into a file (e.g. 
myseqs.fof).
Then you run "seqret @myseqs.fof".

Cheers,
David.

emboss-bounces at lists.open-bio.org schrieb am 06/10/2007 01:38:01:

> Hello,
> I am wondering if  I can use "seqret" from EMBOSS to perform 
> following action.
> 
> I have a database and I have a file which consists of list of protein 
> IDs. I want use seqret to search each entry (in the given file) in 
> the given database and output the search into another file.
> for example:
> seqret "path to the database":AAT37944.1.
> If I use the above mentioned command on command line, I get the 
> output (protein name, protein sequence etc) in fasta format 
> consisting the entry. What I want to do is instead of giving one 
> entry I want to give the whole file, which consists of similar entries.
> 
> Can some one help me here.
> Thanks
> Sudeep
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