cluster
ylzdmm opened this issue · comments
Hello,
I would like to ask how you use MMSeqs2 to cluster RNA, such as what values are set to parameters such as identity and coverage.
Thanks！
Hi,
we collected non-coding RNA sequences from publicly available datasets RNAcentral, nt, Rfam and Ensembl. We removed sequence duplicates with seqkit rmdup and the resulting unique sequences were clustered with mmseqs easy-linclust with options -{}-min-seq-id 0.7 and -c 0.8.
I hope this will help.