Functions for fitting continuous-time Markov and hidden Markov multi-state models to longitudinal data. Designed for processes observed at arbitrary times in continuous time (panel data) but some other observation schemes are supported. Both Markov transition rates and the hidden Markov output process can be modelled in terms of covariates, which may be constant or piecewise-constant in time.
|Author||Christopher Jackson <firstname.lastname@example.org>|
|Date of publication||2016-10-04 14:33:52|
|Maintainer||Christopher Jackson <email@example.com>|
|License||GPL (>= 2)|
2phase: Coxian phase-type distribution with two phases
aneur: Aortic aneurysm progression data
boot.msm: Bootstrap resampling for multi-state models
bos: Bronchiolitis obliterans syndrome after lung transplants
cav: Heart transplant monitoring data
cmodel.object: Developer documentation: censoring model object
coef.msm: Extract model coefficients
crudeinits.msm: Calculate crude initial values for transition intensities
deltamethod: The delta method
draic.msm: Criteria for comparing two multi-state models with nested...
ecmodel.object: Developer documentation: model for covariates on...
efpt.msm: Expected first passage time
ematrix.msm: Misclassification probability matrix
emodel.object: Developer documentation: misclassification model structure...
fev: FEV1 measurements from lung transplant recipients
hazard.msm: Calculate tables of hazard ratios for covariates on...
hmm-dists: Hidden Markov model constructors
hmmMV: Multivariate hidden Markov models
hmodel.object: Developer documentation: hidden Markov model structure object
logLik.msm: Extract model log-likelihood
lrtest.msm: Likelihood ratio test
MatrixExp: Matrix exponential
medists: Measurement error distributions
model.frame.msm: Extract original data from 'msm' objects.
msm: Multi-state Markov and hidden Markov models in continuous...
msm2Surv: Convert data for 'msm' to data for 'survival', 'mstate' or...
msm.form.qoutput: Extract msm model parameter estimates in compact format
msm.object: Fitted msm model objects
odds.msm: Calculate tables of odds ratios for covariates on...
paramdata.object: Developer documentation: internal msm parameters object
pearson.msm: Pearson-type goodness-of-fit test
pexp: Exponential distribution with piecewise-constant rate
phasemeans.msm: Parameters of phase-type models in mixture form
plot.msm: Plots of multi-state models
plot.prevalence.msm: Plot of observed and expected prevalences
plotprog.msm: Kaplan Meier estimates of incidence
plot.survfit.msm: Plot empirical and fitted survival curves
pmatrix.msm: Transition probability matrix
pmatrix.piecewise.msm: Transition probability matrix for processes with...
pnext.msm: Probability of each state being next
ppass.msm: Passage probabilities
prevalence.msm: Tables of observed and expected prevalences
print.msm: Print a fitted msm model object
printold.msm: Print a fitted msm model object
psor: Psoriatic arthritis data
qcmodel.object: Developer documentation: model for covariates on transition...
qgeneric: Generic function to find quantiles of a distribution
qmatrix.msm: Transition intensity matrix
qmodel.object: Developer documentation: transition model structure object
qratio.msm: Estimated ratio of transition intensities
recreate.olddata: Convert data stored in msm object to old format
scoreresid.msm: Score residuals
simfitted.msm: Simulate from a Markov model fitted using msm
sim.msm: Simulate one individual trajectory from a continuous-time...
simmulti.msm: Simulate multiple trajectories from a multi-state Markov...
sojourn.msm: Mean sojourn times from a multi-state model
statetable.msm: Table of transitions
summary.msm: Summarise a fitted multi-state model
surface.msm: Explore the likelihood surface
tnorm: Truncated Normal distribution
totlos.msm: Total length of stay, or expected number of visits
transient.msm: Transient and absorbing states
viterbi.msm: Calculate the probabilities of underlying states and the most...