====== DRIMM - Welcome ======
DRIMM (Drifting Markov Models)

===== General Description =====
DRIMM is a software dedicated to the estimation of Drifting Markov Models (see [1] and [2]). See a more detailed description at this [[:logiciels:drimm:abstract|page]].

[1] **Vergne, N**. Drifting Markov Models with Polynomial Drift and Applications to DNA Sequences. Statistical Applications in Genetics Molecular Biology 2008, vol 7, issue 1.\\
[2] **Vergne, N.** Chaînes de Markov régulées pour l'analyse de séquences biologiques. PhD thesis, Université d'Evry val d'Essonne, 2008.

DRIMM provides four programs :

  - DRIMM : Estimation of DMM by different methods.
  - PVALUEdmm : Compute the p-value of a word under a DMM.  This program needs a configuration file generated by DRIMM  and a markov file generated by Spatt (*).
  - PROBAword : Compute, at each position in the sequence, the probability that a word appears. This program needs a configuration file generated by DRIMM.
  - PROBAlength : Compute, at each position, the probability of appearance of the word of size length who appears in this position. This program needs a configuration file generated by DRIMM.


(*)  http://stat.genopole.cnrs.fr/spatt/



===== Download =====
How to have DRIMM in your home?

**DRIMM** is written in ANSI <nowiki>C++</nowiki> and developed on x86 GNU/Linux systems with GCC 3.4, and successfully tested with GCC latest versions on Sun and Apple Mac OSX systems. It relies on <nowiki>seq++</nowiki> library. Compilation and installation are compliant with the GNU standard procedure. DRIMM is licensed under the GNU General Public License ([[http://www.gnu.org/licenses/licenses.html|GNU GPL]]).


You have to download <nowiki>seq++</nowiki> before downloading DRIMM.

  -[[http://stat.genopole.cnrs.fr/seqpp|Download seq++]]
  -{{:logiciels:drimm-1.1.tar.gz|Download DRIMM}} 

===== Help =====

Help for use of the four programs is provided:

  - [[:logiciels:drimm:help|DRIMM]]
  - [[:logiciels:drimm:help_pvalue|PVALUEdmm]]
  - [[:logiciels:drimm:help_probword|PROBAword]]
  - [[:logiciels:drimm:help_problength|PROBAlength]]