msm v1.6.8
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Multi-State Markov and Hidden Markov Models in Continuous Time
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.
Functions in msm
| Name | Description | |
| boot.msm | Bootstrap resampling for multi-state models | |
| emodel.object | Developer documentation: misclassification model structure object | |
| draic.msm | Criteria for comparing two multi-state models with nested state spaces | |
| hmmMV | Multivariate hidden Markov models | |
| ematrix.msm | Misclassification probability matrix | |
| ecmodel.object | Developer documentation: model for covariates on misclassification probabilities | |
| hmodel.object | Developer documentation: hidden Markov model structure object | |
| efpt.msm | Expected first passage time | |
| fev | FEV1 measurements from lung transplant recipients | |
| hazard.msm | Calculate tables of hazard ratios for covariates on transition intensities | |
| hmm-dists | Hidden Markov model constructors | |
| odds.msm | Calculate tables of odds ratios for covariates on misclassification probabilities | |
| paramdata.object | Developer documentation: internal msm parameters object | |
| msm2Surv | Convert data for `msm' to data for `survival', `mstate' or `flexsurv' analysis | |
| msm.object | Fitted msm model objects | |
| msm.form.qoutput | Extract msm model parameter estimates in compact format | |
| msm | Multi-state Markov and hidden Markov models in continuous time | |
| lrtest.msm | Likelihood ratio test | |
| logLik.msm | Extract model log-likelihood | |
| medists | Measurement error distributions | |
| model.frame.msm | Extract original data from msm objects. | |
| plotprog.msm | Kaplan Meier estimates of incidence | |
| pexp | Exponential distribution with piecewise-constant rate | |
| pearson.msm | Pearson-type goodness-of-fit test | |
| pmatrix.msm | Transition probability matrix | |
| phasemeans.msm | Parameters of phase-type models in mixture form | |
| plot.msm | Plots of multi-state models | |
| qmodel.object | Developer documentation: transition model structure object | |
| qratio.msm | Estimated ratio of transition intensities | |
| print.msm | Print a fitted msm model object | |
| printold.msm | Print a fitted msm model object | |
| qcmodel.object | Developer documentation: model for covariates on transition intensities | |
| plot.survfit.msm | Plot empirical and fitted survival curves | |
| psor | Psoriatic arthritis data | |
| plot.prevalence.msm | Plot of observed and expected prevalences | |
| pmatrix.piecewise.msm | Transition probability matrix for processes with piecewise-constant intensities | |
| pnext.msm | Probability of each state being next | |
| qmatrix.msm | Transition intensity matrix | |
| qgeneric | Generic function to find quantiles of a distribution | |
| simmulti.msm | Simulate multiple trajectories from a multi-state Markov model with arbitrary observation times | |
| surface.msm | Explore the likelihood surface | |
| tnorm | Truncated Normal distribution | |
| sojourn.msm | Mean sojourn times from a multi-state model | |
| recreate.olddata | Convert data stored in msm object to old format | |
| ppass.msm | Passage probabilities | |
| scoreresid.msm | Score residuals | |
| prevalence.msm | Tables of observed and expected prevalences | |
| simfitted.msm | Simulate from a Markov model fitted using msm | |
| updatepars.msm | updatepars.msm | |
| sim.msm | Simulate one individual trajectory from a continuous-time Markov model | |
| viterbi.msm | Calculate the probabilities of underlying states and the most likely path through them | |
| statetable.msm | Table of transitions | |
| totlos.msm | Total length of stay, or expected number of visits | |
| msm.summary | Summarise a fitted multi-state model | |
| transient.msm | Transient and absorbing states | |
| crudeinits.msm | Calculate crude initial values for transition intensities | |
| 2phase | Coxian phase-type distribution with two phases | |
| bos | Bronchiolitis obliterans syndrome after lung transplants | |
| aneur | Aortic aneurysm progression data | |
| MatrixExp | Matrix exponential | |
| deltamethod | The delta method | |
| cav | Heart transplant monitoring data | |
| cmodel.object | Developer documentation: censoring model object | |
| coef.msm | Extract model coefficients | |
| No Results! | ||
Vignettes of msm
Last month downloads
Details
| Date | 2019-12-16 |
| License | GPL (>= 2) |
| URL | https://github.com/chjackson/msm |
| BugReports | https://github.com/chjackson/msm/issues |
| LazyData | yes |
| NeedsCompilation | yes |
| Packaged | 2019-12-16 10:40:33 UTC; chris |
| Repository | CRAN |
| Date/Publication | 2019-12-16 15:30:02 UTC |
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