hmmbuild

hmmbuild Build a profile HMM from an alignment.

hmmbuild [options] hmmfile alignfile

Options

-f

Configure the model for finding multiple domains per sequence, where each domain can be a local (fragmentary) alignment.

-g

Configure the model for finding a single global alignment to a target sequence.

-h

Print brief help.

-n s

Name this HMM s.

-o f

Re-save the starting alignment to f, in Stockholm format.

-s

Configure the model for finding a single local alignment per target sequence.

-A

Append this model to an existing hmmfile rather than creating hmmfile.

-F

Force overwriting of an existing hmmfile.



Sequence Analysis in a Nutshell
Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases
ISBN: 059600494X
EAN: 2147483647
Year: 2005
Pages: 312

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