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soedinglab / MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite
https://mmseqs.com
MIT License
1.46k stars 197 forks source link

MMseqs for big data #523

Open LuckyFeiX opened 2 years ago

LuckyFeiX commented 2 years ago

Dear author, I am working a NR annotation for a large number of samples, and I find MMseq2 is a better software. So I would like to ask whether I can run faster together or one by one, My server configuration: CPU 144 and memory 500G. All cat together: 48 G One is ~200 M

martin-steinegger commented 2 years ago

MMseqs2 is optimized to process multiple queries at once. So it would make sense to package your search into a big fasta file. If you'd like to perform fast single queries against large databases then our MMseqs2-App (server) might be a good solution. This keeps the index of the target database in memory.