- Productions scientifiques
This program is dedicated to the computation, at each position of the sequence of the probability of appearance of the word of size <word_size> who appears at this position according to a Drifting Markov Model (DMM).
-w <word size> Size of words.
-a <alphabet_file> A file describing the alphabet to use.
-s <sequences_file> A file containing sequences. One model for all sequences.
-out <basename> Basename for all ouput files.
-SpM Estimation by splines (global).
-Spl Estimation by splines (basis functions).
-SpH Estimation by splines (no basis functions).
-Poly Estimation by polynom (stochastic matrices).
-PolyM Estimation by polynom (no stochastic matrices).
[-pos <in> <out>] Compute the probabilities of the word for positions in to out.
-cf <config_file> DMM is given by the config_file.
-h Print this help.
PROBAlength -w 3 -a dna.alpha -s lambda.fa -out three -Poly -cf config.out