for Short Sequence Motifs
MaxEntScan::build is a general way of building distributions over short sequence motifs that takes into account non-neighboring dependencies.
To score splice sites or score possible splice sites in a given sequence with different models described in the paper (below) refer to MaxEntScan::score splice
Each sequence must be the same length. Input sequences as a
FastA file with one sequence per line (no linebreaks).
Non-ACGT sequences will not be processed
Example Positive File "5" is the positive label convention used in this program.
Example Negative File "0" is the negative label convention used in this program.