Developer documentation: internal msm parameters object
Description
An object giving information about the parameters of the multistate
model. Used internally during maximum likelihood estimation and
arranging results. Returned as the paramdata
component of a
fitted msm
model object.
Value
inits 
Vector of initial values for distinct parameters which are being estimated. These have been transformed to the real line (e.g. by log), and exclude parameters being fixed at their initial values, parameters defined to be always fixed (e.g. binomial denominators) and parameters constrained to equal previous ones. 
plabs 
Names of parameters in 
allinits 
Vector of parameter values before estimation, including those which are fixed or constrained to equal other parameters, and transformed to the real line. 
hmmpars 
Indices of 
fixed 

fixedpars 
Indices of parameters in 
notfixed 
Indices of parameters which are not fixed by the
definition of 
optpars 
Indices of parameters in 
auxpars 
Indices of "auxiliary" parameters which are always fixed,
for example, binomial denominators ( 
constr 
Vector of integers, of length 
npars 
Total number of parameters, equal to 
nfix 
Number of fixed parameters, equal to 
nopt 
Number of parameters being estimated, equal to

ndup 
Number of parameters defined as duplicates of previous parameters by equality constraints (currently unused). 
ranges 
Matrix of defined ranges for each parameter on the natural scale (e.g. 0 to infinity for rate parameters). 
opt 
Object returned by the optimisation routine (such as 
foundse 

lik 
Minus twice the log likelihood at the parameter estimates. 
deriv 
Derivatives of the minus twice log likelihood at the parameter estimates, if available. 
information 
Corresponding expected information matrix at the parameter estimates, if available. 
params 
Vector of parameter values after maximum likelihood
estimation, corresponding to 
covmat 
Covariance matrix corresponding to 
ci 
Matrix of confidence intervals corresponding to 
estimates.t 
Vector of parameter estimates, as 
See Also
msm.object
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