Question

Database to download HMMs for TIGRFAMS and PFAMS ?

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9.2 years ago

jolespin ▴ 150

Where can I download the actual HMM files used to search for motifs in proteins? On JCVI website I found the seed sequences they used to create the HMMs so I can recreate them one-by-one but it would be annoying to do it for a bunch of HMMs.

hidden markov model tigrfam pfam database motif • 4.3k views

ADD COMMENT • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by jolespin ▴ 150

Ram · Answer 1 · 2015-09-28

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9.2 years ago

Siva ★ 1.9k

The HMM files are under the FTP directories

Pfam HMMs

TIGRFAMs HMMs

ADD COMMENT • link 9.2 years ago by Siva ★ 1.9k

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I tried that but I didn't have read/write access so I couldn't download the files.

ADD REPLY • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by jolespin ▴ 150

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What were your trying? Anyway, just click the link.

ADD REPLY • link 9.2 years ago by SES 8.6k

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I got tigrfam to work but i can't find the files within the pfam ftp

ADD REPLY • link 9.2 years ago by jolespin ▴ 150