beeml2meme [options] <matrix file>+
Convert one or more BEEML matrix files into a MEME motif file suitable for use with MEME Suite programs.
One or more BEEML matrix files describing one or more motifs in terms of letter energy values.
# cell08_Alx3_3418, probe_r_sqr = 0.676, 8mer_r_sqr = 0.868
A 0.12 1.48 0 0 2.18 1.15 0 0.09 0.14 0.13
C 0.02 1.69 1.57 2.2 1.7 0.99 0.82 0.36 0 0.27
G 0.42 2.31 1.9 2.8 2.3 1.12 0.16 0 0.25 0.27
T 0 0 1.67 1.62 0 0 0.59 0.52 0.04 0
# cell08_Alx4_1744, probe_r_sqr = 0.756, 8mer_r_sqr = 0.895
A 0 0.73 0.97 0 0 3.35 2.65 0 0 0.25
C 0.36 0 0 1.58 2.82 3.82 2.23 3.44 0.67 0
G 0.16 0.5 1.32 1.86 2.94 6.2 2.42 3.01 0.21 0.11
T 0.25 0.15 0.05 1.59 3.23 0 0 1.98 0.31 0.28
| Option | Parameter | Description | Default Behaviour |
|---|---|---|---|
| General Options | |||
| -sg | Uniprobe screen grab | Use the screen grab of the Uniprobe browser http://the_brain.bwh.harvard.edu/uniprobe/browse.php to assign Uniprobe IDs to BEEML IDs. | The BEEML matrics must already contain a Uniprobe ID directly following the BEEML ID or the URL will not be added to the motifs. |