Interval Censored Multi-State Models


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Documentation for package ‘icmstate’ version 0.2.0

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icmstate-package icmstate
ageqb Check if event time is larger/equal than other event time
agreaterb Check if event time is larger than other event time
ainB Check if event time is contained within half-open interval
Aintersectb Check if half-open intervals intersect with event times
Alargerb Check if closed interval is contained in half-open infinite interval
AsubsetB Check if closed interval is contained in other closed interval
direct_from_observed_intervals Translate observed transition intervals into direct transition intervals
estimate_support_msm Estimate the support of a general Markov interval-censored Multi-state model without loops.
evalstep Sample from a markov chain multi state model with exactly observed transition times
extend_msfit Given a 'msfit' object, extend the times considered in the object
get_trans_intervals Get transition intervals from specified data
graphfromIntervals Construct Graph from censoring/truncation intervals
icmstate icmstate
interpol_msfit Given a 'msfit' object, linearly interpolate the cumulative hazard taking into account the support sets for 'msfit' objects.
msm_frydman Determine NPMLE for Multi State illness death Markov model using Frydman (1995)
npmsm NPMLE for general multi-state model with interval censored transitions
plot.npmsm Plot a "npmsm" object
plot.probtrans.subjects Plot an object of class '"probtrans.subjects"'
plot.smoothmsm Plot a "smoothmsm" object
plot_probtrans Plot the transition probabilities for a fitted 'npmsm' model
plot_surv Plot the transition specific survival probabilities for a fitted 'npmsm' model
predict_tp Calculate subject specific transition probabilities from a multi-state proportional hazards model.
print.npmsm Print a "npmsm" object
print.summary.probtrans.subjects Print method for a summary.probtrans.subjects object
probtrans_coxph Calculate subject specific transition probabilities from a multi-state 'coxph' model.
probtrans_weib Determine transition probabilities for a multi-state model with Weibull hazards for the transitions.
prod_lambda_G_base Calculate the product of intensities over interval decided by failure times
remove_redundant_observations Remove redundant observations from supplied data frame
sim_id_weib Simulate panel data from an illness-death model with Weibull transition hazards
sim_weibmsm Simulate multiple trajectories from an interval-censored multi-state model with Weibull transition intensities
smoothmsm Smooth hazard estimation for general multi-state model with interval censored transitions
summary.probtrans.subjects Summary method for a probtrans.subjects object
supportHudgens Determine the support of the NPMLE for interval censored data.
support_from_direct_intervals Estimate support of multiple transitions given direct transition intervals
support_npmsm Numerically find the support of the transitions from a converged npmsm algorithm
transprob Wrapper for the 'probtrans' function
transprob.msfit Wrapper for the 'probtrans' function
transprob.msm Wrapper for the 'probtrans' function
transprob.npmsm Wrapper for the 'probtrans' function
visualise_data Visualise data for illness-death model, only applicable to Frydman(1995) setting.
visualise_msm Visualise multi-state data