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simul_m
Langue: en
Version: 113521 (mandriva - 01/05/08)
Section: 1 (Commandes utilisateur)
NAME
simul_m - Markov model simulation toolSYNOPSIS
simul_m arguments [options]DESCRIPTION
simul_m is a program that generates a sequence of tokens using the Markov model given as input. This Markov model can be calculated using the estim_m program or the estim_pm program.ARGUMENTS
- -m --model=FILENAME
- Input file containing the Markov model parameters.
- -l --length=INTEGER
- Length of the sequence to be generated.
OPTIONS
- -a --alphabet=FILENAME
- A file describing the alphabet to use (DNA alphabet, default setting).
- -A --Alphabet=EXPRESSION
- An expression describing the alphabet to use: [number<10 of characters for each pattern]+[:]+[alphabet patterns list] (DNA alphabet, default setting).
- --dna
- Use DNA alphabet (1:AGCT, default setting).
- --protein
- Use amino acid alphabet (1:IVLFCMAGTWSYPHEQDNKR).
- -o --output=FILENAME
- Simulated sequence file. (seq.simul, default setting).
- -v --version
- Display the version number and exit.
- -h --help
- Print this help and exit.
Examples
Generate a sequence of 100000 tokens using the model contained in the model.desc file. Store the result in file sequence.dat.
- simul_m -l 100000 -m model.desc -o sequence.dat
Generate a sequence of 100000 tokens using the model contained in the mod2.desc file. The alphabet of the sequence tokens is contained in the custom.alpha file. Store the result in file seq2.dat.
- simul_m -l 100000 -m mod2.desc -a custom.alpha -o seq2.dat
AUTHORS
simul_m is part of the seq++ package, developed by Vincent Miele <miele@genopole.cnrs.fr>, David Robelin <robelin@genopole.cnrs.fr>, Pierre-Yves Bourguignon <bourguignon@genopole.cnrs.fr>, Gregory Nuel <nuel@genopole.cnrs.fr> and Hugues Richard <richard@genopole.cnrs.fr>.SEE ALSO
estim_m(1), estim_mtd(1), estim_pm(1), estim_vlm(1), dist_m(1)More information on seq++ is available at <http://stat.genopole.cnrs.fr/seqpp>.
Contenus ©2006-2024 Benjamin Poulain
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