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logiciels:drimm:help_problength

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logiciels:drimm:help_problength [2014/11/28 15:51] (current)
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 +====== 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>​
logiciels/drimm/help_problength.txt · Last modified: 2014/11/28 15:51 (external edit)

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