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steineggerlab / foldseek

Foldseek enables fast and sensitive comparisons of large structure sets.
https://foldseek.com
GNU General Public License v3.0
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Total amount of retrieved proteins #193

Open bregman3 opened 8 months ago

bregman3 commented 8 months ago

Hello. I was running FoldSeek and it is only returning the top 1000 hits. I am using the command line version and not the server. I was wondering if there was a way to retrieve all hits down to the bitscore cutoff? Or is 1000 the maximum hits you can receive back currently?

martin-steinegger commented 8 months ago

You can adjust the --max-seqs parameter to get more hits.