![]() |
Version 4.1.5 |
estim_m
is dedicated to Phased Markov model estimation (based on the PhasedMarkov object).estim_vlm
is dedicated to Variable Length Markov model estimation (based on the PhasedVLMarkov object).estim_pm
is dedicated to Parcimonious Markov model estimation (based on the PhasedPMarkov object).estim_mtd
is dedicated to Mixture Transition Distribution Markov model estimation (based on the PhasedMTDMarkov object).simul_m
is dedicated to sequence simulation from a markovian matrix (previously estimated) or a base sequence (based on the PhasedMarkov object).dist_m
computes the Total Variation Distance between two Markov models previously estimated with estim_*.
Nota bene: the estim_*
programs differs only on the way the estimation of the markovian matrix is performed.
Basicaly the best way to discover the possibilities of these programs is the Unix way:
program_name --help OR man program_name
The estimation results can be saved in such a representation:
# 1 <- Order of the phased Markov chain # 2 <- Phase # 4 <- Alphabet size # Phase n°0 # Transition matrix: 0.3945322543 0.1652811616 0.1535033485 0.2866832356 0.2758032675 0.208204727 0.2605722039 0.2554198016 0.3496152294 0.2310568942 0.1708121974 0.248515679 0.2312234494 0.2503993203 0.1515293118 0.3668479184 # Stationnary Probability: 0.3127105148 0.2114684268 0.1783495332 0.2974715251 # Phase n°1 # Transition matrix: 0.3923961961 0.163516403 0.1521005152 0.2919868858 0.2789719005 0.2082462898 0.2570550517 0.2557267579 0.352109549 0.2297549901 0.1679259742 0.2502094867 0.2320996136 0.2447917561 0.1520437956 0.3710648347 # Stationnary Probability: 0.3135417652 0.2089660861 0.1771006767 0.300391472
Download seq++ 4.1.5 |
Download previous versions |
Statistique & Genome Home |
Contributors : M.Baudry, P.Y.Bourguignon, M.Hoebeke, V.Miele, P.Nicolas, G.Nuel, H.Richard, D.Robelin |