nmica2meme [options]
Convert a nestedMICA (BioTiffin/XMS) matrix file into a MEME motif file suitable for use with MEME Suite programs.
Reads a nestedMICA (BioTiffin/XMS) matrix file from standard input.
See the Sample XMS file from Benos lab, University of Pittsburgh
| Option | Parameter | Description | Default Behaviour |
|---|---|---|---|
| General Options | |||
| -numseqs | n | Assume frequences are based on n sites. | Assume frequences are based on 20 sites. |
| -truncate_names | Truncate the motif names (IDs) at the first underscore. | Use the full motif names. | |
| -h | Outputs a brief usage message. | Runs as normal. | |