PSI-Blast

Joe Ryan jfryan at NHGRI.NIH.GOV
Wed Apr 28 15:45:42 EST 1999


Arne,

You can have ASN1 format returned if you are running local NCBI BLAST
by adding -O and -J parameters...

for example...

blastall -p blastn -d est -i brca1.nt -J T -o brca1.nt.report -O brca1.nt.asn1

If you are using local databases you will have to format your deflines like
Genbank does e.g. >gi|129628|sp|P07175|PARA_AGRTU PARA PROTEIN...
to have this feature work correctly...

Then you can write an ASN1 parser that will not be subject to the same
kinds of changes that a Human Readable BLAST Report Parser is.

--Joe

On Wed, Apr 28, 1999 at 07:53:09PM +0100, Arne Mueller wrote:
> Robert Kingsbury wrote:
> 
> > 
> > It would be really nice for blast to throw out a file that has a
> > standardized output as well as that pretty file it already does. With
> > the volume of data that everyone is dealing with nowadays, it would
> > probably be a really good idea.
> > 
> 
> Does anybody know where to find the 'whish list' of blast users for the
> blast developers ... ?
> 	
> 	Arne
> 




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