A list giving information about the structure of states and allowed
transitions in a multi-state model, and options for likelihood
calculation. Used in internal computations, and returned in a fitted
msm model object.
Number of states
Label for which basic structure the model is isomorphic
to in the list of structures for which analytic formulae for the
transition probabilities are implemented in the source file
src/analyticp.c.
This list is given by the internal object msm:::.msm.graphs
which is defined and documented in the source file
R/constants.R.
iso is 0 if the analytic P matrix is not implemented for this
structure, or if analytic P matrix calculations are disabled using
use.analyticp=FALSE in the call to msm.
Permutation required to convert the base isomorphism into the structure of this model. A vector of integers whose \(r\)th element is the state number in the base structure representing state \(r\) in the current structure.
Inverse permutation: vector whose \(r\)th element is the state number in the current structure representing the \(r\)th state in the base structure.
Number of allowed instantaneous transitions, equal to sum(imatrix).
Indicator matrix for allowed instantaneous transitions. This has \((r,s)\) entry 1 if the transition from \(r\) to \(s\) is permitted in continuous time, and 0 otherwise. The diagonal entries are arbitrarily set to 0.
Matrix of initial values for the transition
intensities, supplied as the qmatrix argument of msm.
Vector of these initial values, reading across rows of
qmatrix and excluding the diagonal and disallowed transitions.
Indicators for equality constraints on baseline
intensities, taken from the qconstraint argument to
msm, and mapped if necessary to the set (1,2,3,...).
Number of distinct allowed instantaneous transitions, after applying equality constraints.
Use expm package to calculate matrix exponentials
for likelihoods, as supplied to the use.expm argument of
msm. TRUE or FALSE.
msm.object,emodel.object, hmodel.object.