which hmm file to use from Gene 3D database

I am using hmmer-3.2.1 to search against protein databases (pfamA and Gene3D) to filter unknown-transcripts with coding potential for lncRNA identification.

I found these hmm files (mentioned below) in their ftp site

File:funfam-frozen-hmm3.aln.tgz
File:funfam-hmm3.lib.gz

Which of the two files should I use?

Thanks in advance for your reply.

database rna-seq

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written 7.2 years ago by kousi31 •

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