Hi!
I know this is a bit off topic, but does anyone know how to convert to a log-odds motif file for MAST?
I have a motif in the following format:
And I'm trying to convert to a format compatible with MAST to look for occurances of this motif. That format should be :
Any help much appreciated!
I know this is a bit off topic, but does anyone know how to convert to a log-odds motif file for MAST?
I have a motif in the following format:
Code:
motif YTCAGCACCRHGGASAGNKMY acgt 0.051429 0.051429 0.011429 0.885714 acgt 0.000000 0.005714 0.000000 0.994286 acgt 0.000000 0.994286 0.000000 0.005714 acgt 1.000000 0.000000 0.000000 0.000000 acgt 0.000000 0.000000 1.000000 0.000000 acgt 0.005714 0.954286 0.011429 0.028571 acgt 0.977143 0.000000 0.005714 0.017143 acgt 0.000000 1.000000 0.000000 0.000000 acgt 0.005714 0.982857 0.005714 0.005714 acgt 0.777143 0.017143 0.165714 0.040000 acgt 0.337143 0.462857 0.097143 0.102857 acgt 0.000000 0.000000 1.000000 0.000000 acgt 0.011429 0.000000 0.988571 0.000000 acgt 0.931429 0.034286 0.017143 0.017143 acgt 0.022857 0.702857 0.257143 0.017143 acgt 0.994286 0.005714 0.000000 0.000000 acgt 0.005714 0.000000 0.994286 0.000000 acgt 0.114286 0.588571 0.142857 0.154286 acgt 0.057143 0.005714 0.822857 0.114286 acgt 0.062857 0.874286 0.034286 0.028571 acgt 0.062857 0.777143 0.028571 0.131429
Code:
ALPHABET= alphabet log-odds matrix: alength= alength w= w row_1 row_2 ... row_w