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Old 02-12-2015, 07:26 AM   #9
thh32
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Location: UK

Join Date: Feb 2014
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Quote:
Originally Posted by GenoMax View Post
Perhaps you are not running your blast jobs efficiently? Just a thought.

Swissprot/Trembl restricted to bacteria has got to be smaller than nr. 30 hours seems fairly long unless your input file has hundreds/thousands of sequences.
Each of the query files is ~9Mb as the original file of 6.5Gb was split into 1000 smaller pieces to speed up the process however the bacteria subset of Trembl is 30Gb which seems to be the issue but even when split into 1Gb subsets it still haves 30 hours. How do you increase the efficiency of your blast jobs?
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