This program is dedicated to the computation of pvalue of words. It needs a markov file generated by Spatt(*). Results are given at this order:
Word Nobs Expectation - log(P(N>Nobs) P(N>Nobs) if Nobs>=E(N)
Word Nobs Expectation +log(P(N<Nobs) P(N<Nobs) if Nobs<E(N)
** -w <word>** Word to studied.
** -c <Nobs>=0>** Number of occurrences of word.
** -a <alphabet_file>** A file describing the alphabet to use.
** -m <markov_file>** Markov_file of xspatt program.
** -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).
** -cf <config_file>** DMM is given by the config_file.
** -h** Print this help.
PVALUEdmm -w gc -c 45 -a dna.alpha -m gc.markov -Poly -cf config.out