# General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction

## Documentation for package ‘frailtypack’ version 2.10.3

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Code demos. Use demo() to run them.
- Package NEWS.

## Help Pages

frailtypack-package | General Frailty models: shared, joint and nested frailty models with prediction
additivePenal | Fit an Additive Frailty model using a semiparametric penalized likelihood estimation or a parametric estimation
bcos | Breast Cosmesis Data
CbootstrapFP | Concordance measures in shared frailty and Cox proportional hazard models
cindexes | Concordance measures in shared frailty and Cox proportional hazard models
cindexes.B | Concordance measures in shared frailty and Cox proportional hazard models
cindexes.frailty | Concordance measures in shared frailty and Cox proportional hazard models
cindexes.W | Concordance measures in shared frailty and Cox proportional hazard models
cluster | Identify clusters
Cmeasures | Concordance measures in shared frailty and Cox proportional hazard models
colorectal | Follow-up of metastatic colorectal cancer patients: times of new lesions appearance and death
colorectalLongi | Follow-up of metastatic colorectal cancer patients : longitudinal measurements of tumor size
dataAdditive | Simulated data as a gathering of clinical trials databases
dataMultiv | Simulated data for two types of recurrent events and a terminal event
dataNested | Simulated data with two levels of grouping
Diffepoce | Difference of Expected Prognostic Observed Cross-Entropy (EPOCE) estimators and its 95% tracking interval between two joint models.
epoce | Estimators of the Expected Prognostic Observed Cross-Entropy (EPOCE) for evaluating predictive accuracy of joint models.
event2 | Identify event2 indicator
factor.names | Fit a Shared, Joint or Nested Frailty model
frailtypack | General Frailty models: shared, joint and nested frailty models with prediction
frailtyPenal | Fit a Shared, Joint or Nested Frailty model
hazard | Hazard function.
lines.additivePenal | Plot Method for an Additive frailty model.
lines.frailtyPenal | Plot Method for a Shared frailty model.
lines.jointNestedPenal | Plot method for a joint nested frailty model.
lines.jointPenal | Plot Method for a Joint frailty model.
lines.longiPenal | Plot Method for a joint model for longitudinal data and a terminal event.
lines.nestedPenal | Plot Method for a Nested frailty model.
lines.trivPenal | Plot Method for a trivariate joint model for longitudinal data, recurrent events and a terminal event.
longiPenal | Fit a Joint Model for Longitudinal Data and a Terminal Event
multivPenal | Fit a multivariate frailty model for two types of recurrent events and a terminal event.
multivPenal for multivariate frailty model | Fit a multivariate frailty model for two types of recurrent events and a terminal event.
num.id | Identify individuals in Joint model for clustered data
plot.additivePenal | Plot Method for an Additive frailty model.
plot.Diffepoce | Plot difference of EPOCE estimators between two joint frailty models.
plot.epoce | Plot values of estimators of the Expected Prognostic Observed Cross-Entropy (EPOCE).
plot.frailtyPenal | Plot Method for a Shared frailty model.
plot.jointNestedPenal | Plot method for a joint nested frailty model.
plot.jointPenal | Plot Method for a Joint frailty model.
plot.longiPenal | Plot Method for a joint model for longitudinal data and a terminal event.
plot.multivPenal | Plot Method for a multivariate frailty model.
plot.nestedPenal | Plot Method for a Nested frailty model.
plot.predFrailty | Plot predictions using a Cox or a shared frailty model.
plot.predJoint | Plot predictions using a joint frailty model.
plot.predLongi | Plot predictions using a joint model for longitudinal data and a terminal event or a trivariate joint model for longitudinal data, recurrent events and a terminal event.
plot.trivPenal | Plot Method for a trivariate joint model for longitudinal data, recurrent events and a terminal event.
prediction | Prediction probabilities for Cox proportionnal hazard, Shared, Joint frailty models, Joint models for longitudinal data and a terminal event and Trivariate joint model for longitudinal data, recurrent events and a terminal event.
print.additivePenal | Print a Short Summary of parameter estimates of an additive frailty model
print.Cmeasures | Print a short summary of results of Cmeasure function.
print.frailtyPenal | Print a Short Summary of parameter estimates of a shared frailty model
print.jointNestedPenal | Print a Short Summary of parameter estimates of a joint nested frailty model
print.jointPenal | Print a Short Summary of parameter estimates of a joint frailty model
print.longiPenal | Print a Summary of parameter estimates of a joint model for longitudinal data and a terminal event
print.multivPenal | Print a Short Summary of parameter estimates of a multivariate frailty model
print.nestedPenal | Print a Short Summary of parameter estimates of a nested frailty model
print.predFrailty | Print a short summary of results of prediction function.
print.predJoint | Print a short summary of results of prediction function.
print.predLongi | Print a short summary of results of prediction function.
print.summary.additivePenal | summary of parameter estimates of an additive frailty model
print.summary.frailtyPenal | summary of parameter estimates of a shared frailty model
print.summary.jointNestedPenal | summary of parameter estimates of a joint nested frailty model
print.summary.jointPenal | summary of parameter estimates of a joint frailty model
print.summary.longiPenal | Short summary of fixed covariates estimates of a joint model for longitudinal data and a terminal event
print.summary.nestedPenal | summary of regression coefficient estimates of a nested frailty model
print.summary.trivPenal | Short summary of fixed covariates estimates of a joint model for longitudinal data, recurrent events and a terminal event
print.trivPenal | Print a Summary of parameter estimates of a joint model for longitudinal data, recurrent events and a terminal event
readmission | Rehospitalization colorectal cancer
slope | Identify variable associated with the random slope
statFP | Concordance measures in shared frailty and Cox proportional hazard models
subcluster | Identify subclusters
summary.additivePenal | summary of parameter estimates of an additive frailty model
summary.frailtyPenal | summary of parameter estimates of a shared frailty model
summary.jointNestedPenal | summary of parameter estimates of a joint nested frailty model
summary.jointPenal | summary of parameter estimates of a joint frailty model
summary.longiPenal | Short summary of fixed covariates estimates of a joint model for longitudinal data and a terminal event
summary.multivPenal | summary of parameter estimates of a multivariate frailty model.
summary.nestedPenal | summary of regression coefficient estimates of a nested frailty model
summary.trivPenal | Short summary of fixed covariates estimates of a joint model for longitudinal data, recurrent events and a terminal event
SurvIC | Create a survival object for interval censoring and possibly left truncated data
survival | Survival function
terminal | Identify terminal indicator
timedep | Identify time-varying effects
timedep.names | Fit a Shared, Joint or Nested Frailty model
transfo.table | Fit a multivariate frailty model for two types of recurrent events and a terminal event.
trivPenal | Fit a Trivariate Joint Model for Longitudinal Data, Recurrent Events and a Terminal Event
waldtest | Fit a Shared, Joint or Nested Frailty model