Multi-State Markov and Hidden Markov Models in Continuous Time
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Documentation for package ‘msm’ version 1.7.1
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A B C D E F H I L M O P Q R S T U V misc
| msm-package | Multi-State Markov and Hidden Markov Models in Continuous Time |
-- A --
| absorbing.msm | Transient and absorbing states |
| aneur | Aortic aneurysm progression data |
-- B --
| boot.msm | Bootstrap resampling for multi-state models |
| bos | Bronchiolitis obliterans syndrome after lung transplants |
| bos3 | Bronchiolitis obliterans syndrome after lung transplants |
| bos4 | Bronchiolitis obliterans syndrome after lung transplants |
-- C --
| cav | Heart transplant monitoring data |
| cmodel.object | Developer documentation: censoring model object |
| coef.msm | Extract model coefficients |
| contour.msm | Explore the likelihood surface |
| crudeinits.msm | Calculate crude initial values for transition intensities |
-- D --
| d2phase | Coxian phase-type distribution with two phases |
| deltamethod | The delta method |
| dmenorm | Measurement error distributions |
| dmeunif | Measurement error distributions |
| dpexp | Exponential distribution with piecewise-constant rate |
| draic.msm | Criteria for comparing two multi-state models with nested state spaces |
| drlcv.msm | Criteria for comparing two multi-state models with nested state spaces |
| dtnorm | Truncated Normal distribution |
-- E --
| ecmodel.object | Developer documentation: model for covariates on misclassification probabilities |
| efpt.msm | Expected first passage time |
| ematrix.msm | Misclassification probability matrix |
| emodel.object | Developer documentation: misclassification model structure object |
| envisits.msm | Total length of stay, or expected number of visits |
-- F --
| fev | FEV1 measurements from lung transplant recipients |
-- H --
| h2phase | Coxian phase-type distribution with two phases |
| hazard.msm | Calculate tables of hazard ratios for covariates on transition intensities |
| hmm-dists | Hidden Markov model constructors |
| hmmBeta | Hidden Markov model constructors |
| hmmBetaBinom | Hidden Markov model constructors |
| hmmBinom | Hidden Markov model constructors |
| hmmCat | Hidden Markov model constructors |
| hmmExp | Hidden Markov model constructors |
| hmmGamma | Hidden Markov model constructors |
| hmmIdent | Hidden Markov model constructors |
| hmmLNorm | Hidden Markov model constructors |
| hmmMETNorm | Hidden Markov model constructors |
| hmmMEUnif | Hidden Markov model constructors |
| hmmMV | Multivariate hidden Markov models |
| hmmNBinom | Hidden Markov model constructors |
| hmmNorm | Hidden Markov model constructors |
| hmmPois | Hidden Markov model constructors |
| hmmT | Hidden Markov model constructors |
| hmmTNorm | Hidden Markov model constructors |
| hmmUnif | Hidden Markov model constructors |
| hmmWeibull | Hidden Markov model constructors |
| hmodel.object | Developer documentation: hidden Markov model structure object |
-- I --
| image.msm | Explore the likelihood surface |
-- L --
| logLik.msm | Extract model log-likelihood |
| lrtest.msm | Likelihood ratio test |
-- M --
| MatrixExp | Matrix exponential |
| medists | Measurement error distributions |
| model.frame.msm | Extract original data from 'msm' objects. |
| model.matrix.msm | Extract original data from 'msm' objects. |
| msm | Multi-state Markov and hidden Markov models in continuous time |
| msm.form.eoutput | Extract msm model parameter estimates in compact format |
| msm.form.qoutput | Extract msm model parameter estimates in compact format |
| msm.object | Fitted msm model objects |
| msm2Surv | Convert data for 'msm' to data for 'survival', 'mstate' or 'flexsurv' analysis |
-- O --
| odds.msm | Calculate tables of odds ratios for covariates on misclassification probabilities |
-- P --
| p2phase | Coxian phase-type distribution with two phases |
| paramdata.object | Developer documentation: internal msm parameters object |
| pearson.msm | Pearson-type goodness-of-fit test |
| persp.msm | Explore the likelihood surface |
| 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 |
| plot.survfit.msm | Plot empirical and fitted survival curves |
| plotprog.msm | Kaplan Meier estimates of incidence |
| pmatrix.msm | Transition probability matrix |
| pmatrix.piecewise.msm | Transition probability matrix for processes with piecewise-constant intensities |
| pmenorm | Measurement error distributions |
| pmeunif | Measurement error distributions |
| pnext.msm | Probability of each state being next |
| ppass.msm | Passage probabilities |
| ppexp | Exponential distribution with piecewise-constant rate |
| prevalence.msm | Tables of observed and expected prevalences |
| print.msm | Print a fitted msm model object |
| print.summary.msm | Summarise a fitted multi-state model |
| printnew.msm | Print a fitted msm model object |
| printold.msm | Print a fitted msm model object |
| psor | Psoriatic arthritis data |
| ptnorm | Truncated Normal distribution |
-- Q --
| q2phase | Coxian phase-type distribution with two phases |
| qcmodel.object | Developer documentation: model for covariates on transition intensities |
| qgeneric | Generic function to find quantiles of a distribution |
| qmatrix.msm | Transition intensity matrix |
| qmenorm | Measurement error distributions |
| qmeunif | Measurement error distributions |
| qmodel.object | Developer documentation: transition model structure object |
| qpexp | Exponential distribution with piecewise-constant rate |
| qratio.msm | Estimated ratio of transition intensities |
| qtnorm | Truncated Normal distribution |
-- R --
| r2phase | Coxian phase-type distribution with two phases |
| recreate.olddata | Convert data stored in msm object to old format |
| rmenorm | Measurement error distributions |
| rmeunif | Measurement error distributions |
| rpexp | Exponential distribution with piecewise-constant rate |
| rtnorm | Truncated Normal distribution |
-- S --
| scoreresid.msm | Score residuals |
| sim.msm | Simulate one individual trajectory from a continuous-time Markov model |
| simfitted.msm | Simulate from a Markov model fitted using msm |
| simmulti.msm | Simulate multiple trajectories from a multi-state Markov model with arbitrary observation times |
| 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 |
-- T --
| tnorm | Truncated Normal distribution |
| totlos.msm | Total length of stay, or expected number of visits |
| transient.msm | Transient and absorbing states |
| twophase | Coxian phase-type distribution with two phases |
-- U --
| updatepars.msm | Update the maximum likelihood estimates in a fitted model object. |
-- V --
| viterbi.msm | Calculate the probabilities of underlying states and the most likely path through them |
-- misc --
| _PACKAGE | Multi-State Markov and Hidden Markov Models in Continuous Time |