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soedinglab / MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite
https://mmseqs.com
MIT License
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[Question] Is easy-linclust a safe drop-in replacement for easy-cluster? #696

Open jolespin opened 1 year ago

jolespin commented 1 year ago

I've been using linclust and it is extremely fast. I'm wondering if I can just use this in place of easy-cluster for all of my clustering tasks. Are there any caveats to doing this?

milot-mirdita commented 1 year ago

Depends on your use-case. What data are you clustering? Linclust is not as sensitive as the full clustering workflow.

Linclust is also executed as the first stage of the "normal" cluster workflow.

jolespin commented 1 year ago

Clustering proteins in a pangenome of different genomes that cluster at 95% ANI