[WashU] HMMER
User's Guide


| Dept. of Genetics | WashU | Medical School | Sequencing Center | CGM | IBC|
| Eddy lab | Internal (lab only) | HMMER | PFAM | tRNAscan-SE | Software | Publications |

next up previous contents
Next: hmmfetch - retrieve an Up: Manual pages Previous: hmmconvert - convert between

Subsections

hmmemit - generate sequences from a profile HMM

Synopsis

hmmemit [options] hmmfile

Description

hmmemit reads an HMM file from hmmfile and generates a number of sequences from it; or, if the -c option is selected, generate a single majority-rule consensus. This can be useful for various applications in which one needs a simulation of sequences consistent with a sequence family consensus.

By default, hmmemit generates 10 sequences and outputs them in FASTA (unaligned) format.

Options

Expert Options


next up previous contents
Next: hmmfetch - retrieve an Up: Manual pages Previous: hmmconvert - convert between


Direct comments and questions to <eddy@genetics.wustl.edu>