[Inparanoid] BLAST score

Erik Sonnhammer erik.sonnhammer at scilifelab.se
Fri Oct 28 14:03:02 CEST 2016

Hi Fritz,

yes the score depends on blast options such as score matrix adjustment.  
You can see the used options in the inparanoid.pl script.


On 2016-10-27 23:19, fritz.franz at gmx.net wrote:
> Hi everybody,
> I have  a question concerning the BLAST scores in InParanoid8. I 
> realized that the BLAST scores are pretty different from the scores I 
> get in a standard BLAST search at blast.ncbi.nlm.nih.gov 
> <http://blast.ncbi.nlm.nih.gov/>. I assume that InParanoid automated 
> BLAST searches use a different set of BLAST scoring parameters than 
> standard. Do you know what the settings are? Or is there a different 
> reason why the BLAST scores are different?
> Thank you very much for your help!
> Fritz Franz
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