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Forum: Bioinformatics 12-01-2015, 09:15 PM
Replies: 6
Views: 3,378
Posted By quokka
Ok...it took me a long time before i was able to...

Ok...it took me a long time before i was able to get back to this......

I essentially tried what tomc suggested. The problem I found was that the e-values were a bit different to what I was...
Forum: Bioinformatics 04-02-2015, 08:35 PM
Replies: 6
Views: 3,378
Posted By quokka
Thanks very much for the info Genomax....very...

Thanks very much for the info Genomax....very helpful!

The queues on our cluster for machines with >24GB physical memory (22GB available) are exceptionally long.....so 18GB sounds good....
...
Forum: Bioinformatics 04-01-2015, 01:25 AM
Replies: 6
Views: 3,378
Posted By quokka
ah.....I left it go for a long time and...

ah.....I left it go for a long time and eventually an insufficient memory error came up.....so that was it....

It wasn't clear to me what the memory requirements for blast+ were (and whether...
Forum: Bioinformatics 03-31-2015, 05:54 PM
Replies: 6
Views: 3,378
Posted By quokka
TBLASTX with nt database and PBS PRO job scheduler

Hi I'm wondering if someone might be able to help.

I'm attempting to do a TBLASTX search with 5 query sequences (each about ~1kb in size) against the nt database from NCBI (28990570 sequences).
...
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