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bitscore vs identity

Open slambrechts opened this issue 3 years ago • 0 comments

Hi,

I see that minimum bitScore of a search to retain hits is 60 by default. I am working with custom databases and I notice in the annotations.tsv file that hits with similar identity can produce widely different bitscores. e.g.:

WP_023543351.1	WP_023543351.1 - Streptomyces niveus - [NiFe] Group 1h	        TRUE  	0.94	1156.0
WP_011516268.1	WP_011516268.1 - Cupriavidus metallidurans - [NiFe] Group 3d	FALSE	0.936	67.0

Is this purely due to the RBH being FALSE vs TRUE?

Before DRAM I searched for hits manually using diamond/mmseqs, and I used a minimum identity cutoff of 0.50 and query cover > 80%, but I'm not sure how that relates to the minimum bitScore used in DRAM?

slambrechts avatar Dec 13 '21 11:12 slambrechts