Re: [Gmod-resources] cross-species gene similarity compute criteria? [BMS specs]

[Don G. <gil...@bi...>]

Here are the blast specs for the cross-species gene similarity compute run
at Bristol Myer Squibb, available at GMOD.

http://prdownloads.sourceforge.net/gmod/Refseq_Genome_TBLASTX.tar.gz
README:
Cross species comparisons of RefSeq and Yeast transcripts aligned to genomes using
TBLASTX.

        Nathan Siemers
        Donald Jackson

The enclosed files contain the results of large scale tblastx analyses
of refseq and yeast ORF transcript information onto the genomes of
yeast, drosophila, and C. elegans genomes.  Analyses were run via
NCBI blastall 2.2.1 on 32 Processor SGI Origin 2000 and 3000 series
machines, with the following parameters:

-b 1 -v 1 -e 0.00001 -p tblastx

Thus *only* the top hit from any transcript onto a genome is saved (if
its probability of significance is less than 1e-5).  

-- d.gilbert--bioinformatics--indiana-u--bloomington-in-47405
-- gil...@in...--http://marmot.bio.indiana.edu/