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.