Question

Database to download HMMs for TIGRFAMS and PFAMS ?

1

Entering edit mode

8.6 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 • 4.1k views

ADD COMMENT • link updated 19 months ago by Ram 43k • written 8.6 years ago by jolespin ▴ 150

Ram · Answer 1 · 2015-09-28

2

Entering edit mode

8.6 years ago

Siva ★ 1.9k

The HMM files are under the FTP directories

Pfam HMMs

TIGRFAMs HMMs

ADD COMMENT • link 8.6 years ago by Siva ★ 1.9k

0

Entering edit mode

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

ADD REPLY • link updated 19 months ago by Ram 43k • written 8.6 years ago by jolespin ▴ 150

0

Entering edit mode

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

ADD REPLY • link 8.6 years ago by SES 8.6k

0

Entering edit mode

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

ADD REPLY • link 8.6 years ago by jolespin ▴ 150