Package hmmer-2.2g-3

HMMER - profile hidden Markov models for biological sequence analysis Version 2.2 (August 2001) Copyright (C) 1992-2001 Washington University School of Medicine ------------------------------------------------------------------ o About this software... HMMER is an implementation of profile HMM methods for sensitive database searches using multiple sequence alignments as queries. Basically, you give HMMER a multiple sequence alignment as input; it builds a statistical model called a "hidden Markov model" which you can then use as a query into a sequence database to find (and/or align) additional homologues of the sequence family.

To demonstrate hmmer, run: /sw/share/hmmer/demo/hmmsearch.sh You may manually download any HMM libraries to /data/hmmerdb from: ftp://ftp.genetics.wustl.edu/pub/eddy/Pfam/ If you want to use another location for your databases set the environment variable HMMERDB. For more information, see: http://hmmer.wustl.edu/ http://pfam.wustl.edu/