TBLASTN on a large DNA database (352GB)
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7.1 years ago
chippy8899 ▴ 10

Hi,

I wonder if it possible to run command TBLASTN on a large metagenomic database(352G)? Wondering how long does it take if I m running on 4 cpus with memory available of 32G...

blast • 1.7k views
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I am not 100% sure but based on my experience it might take 10-30 mins for one sequence.

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7.1 years ago
Kamil ★ 2.1k

USEARCH is "orders of magnitude faster than BLAST", so you might consider using that instead.

In a benchmark with 1,000 queries against a 15 Gb FASTA file containing 38.5 M proteins, USEARCH achieved a similar result to BLAST and finished in 9 minutes instead of 4.5 hours.

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