runHomHMM {snapCGH} | R Documentation |
A function to fit unsupervised Hidden Markov model
Description
This function fits an unsupervised Hidden Markov model to a given
MAList or \code{SegList}
Usage
runHomHMM(input, vr = 0.01,
maxiter = 100, criteria = "AIC", delta = NA,
full.output = FALSE, eps = 0.01)
Arguments
input |
an object of class MAList or SegList |
vr |
Gets passed to the function
hidden as the pshape arguement. |
maxiter |
Gets passed to the function
hidden as the iterlim
arguement. |
criteria |
Choice of which selection criteria should be used in
the algorithm. The choices are either AIC or BIC |
delta |
Delta value used of the BIC is selected. If no value is
entered it defaults to 1. |
full.output |
if true the SegList output includes a probability
that a clone is in its assigned state and a smoothed value for the
clone. |
eps |
parameter controlling the convergence of the EM
algorithm. |
See Also
runDNAcopy
runGLAD
SegList
[Package
snapCGH version 1.4.0
Index]