[Bioperl-l] Different Blast results from web-based interface and command line interface

[Chris Fields]

you would need to ask NCBI that.

chris

On May 10, 2010, at 1:35 PM, Bhakti Dwivedi wrote:

> Thanks Chris!  I changed few parameter values in blastcl3 and now the
> results are same.  Any particular reason to set the default differently in
> web-based and command-line blast search?
> 
> Bhakti
> 
> 
> 
> On Mon, May 10, 2010 at 12:28 PM, Chris Fields <cjfields at illinois.edu>wrote:
> 
>> The default web-based parameters differ than those via blastcl3, so if you
>> are using the defaults for both they may differ somewhat.
>> 
>> chris
>> 
>> On May 10, 2010, at 10:22 AM, Bhakti Dwivedi wrote:
>> 
>>> Does anyone know why the blast results vary for a query sequence when
>> search
>>> is conducted using a web-based interface versus a Command line interface?
>>> 
>>> For example, my web-based blast top hits do not match  the top hits of
>> the
>>> command line blast (blastcl3).  I am using the default settings in both.
>>> not sure why the results are different  Even if the hit is there, the
>>> e-value, bit score etc are different for the same hsp regions identified
>>> within the hit.  is there a difference in the blast algorithm?  or is it
>> the
>>> database?
>>> 
>>> Thanks!
>>> _______________________________________________
>>> Bioperl-l mailing list
>>> Bioperl-l at lists.open-bio.org
>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>> 
>> 
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