| addStateMatrix | addStateMatrix |
| ArtCohort | Class '"ArtCohort"' |
| countCost | Counts a cost of the interventions in the cohort |
| cumulativeIncidence | Cumulative Incidence |
| generateHazardMatrix | generate template for transition functions |
| generateParameterCovarianceMatrix | generate a template for parameter covariances |
| generateParameterMatrix | generate a template for mean parameters |
| graphHf | graphHf |
| makeM | makeM |
| mergeStates | mergeStates |
| plot-PosteriorProbabilities-method | plot |
| plotProgressionPath | plotProgressionPath |
| PosteriorProbabilities | Class '"PosteriorProbabilities"' |
| simulateCohort | Simulate cohort |
| start_gui | Starts graphical user interface for gems |
| timeInStates | Builds hazard function matrix based on the hazard function... |
| transitionProbabilities | transition probabilities |
| transition.structure | Class '"transition.structure"' |
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