====== Help PROBAlength ======


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).

===== Description of parameters =====


** -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.

===== Examples =====

<code>
PROBAlength -w 3 -a dna.alpha -s lambda.fa -out three -Poly -cf config.out
</code>