hmmemit

hmmemit

Generate sequences from a profile HMM.

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hmmemit [options] hmmfile

Options

-a

Write the generated sequences in an aligned format (SELEX) rather than FASTA.

-c

Predict a single majority-rule consensus sequence instead of sampling sequences from the HMM's probability distribution.

-h

Print brief help.

-n n

Generate n sequences. Default is 10.

-o f

Save the synthetic sequences to file f rather than writing them to stdout.

-q

Quiet; suppress all output except for the sequences themselves.