[Inparanoid] offline blast parameters when setting run_blast = 0

[Erik Sonnhammer]

On 11/10/2014 12:27 PM, Sammy Desilva wrote:
> As mentioned in inparanoid.pl <http://inparanoid.pl> $run_blast could 
> be set 0 if we have the blast files. For the pairwise comparison of a 
> big dataset I want to run the blastall on cluster. Could you tell me 
> which parameter-set of blastall I should use so that there will be no 
> difference in results (when $run_blast is 1)?
Hi, simply use the same parameters ;)

You can save compute time by running the "A-A" comparisons only once. If 
you run the script for each species comparisons, A-A and B-B will be 
rerun every time, so you almost save half the compute if you just do it 
once for the whole batch.

> Next, when setting $run_blast = 0 the blastall results should already 
> be parsed?
Yes.

/Erik
>
> Thanks.
> Sammy
>
>
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