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pencal (version 2.1.1)

Penalized Regression Calibration (PRC) for the Dynamic Prediction of Survival

Description

Computes penalized regression calibration (PRC), a statistical method for the dynamic prediction of survival when many longitudinal predictors are available. PRC is described in Signorelli et al. (2021) and Signorelli (2023) .

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Version

Install

install.packages('pencal')

Monthly Downloads

243

Version

2.1.1

License

GPL (>= 3)

Maintainer

Mirko Signorelli

Last Published

October 27th, 2023

Functions in pencal (2.1.1)

performance_prc

Predictive performance of the PRC-LMM and PRC-MLPMM models
simulate_t_weibull

Generate survival data from a Weibull model
simulate_prcmlpmm_data

Simulate data that can be used to fit the PRC-LMM model
print.prclmm

Print method for PRC-LMM model fits
simulate_prclmm_data

Simulate data that can be used to fit the PRC-LMM model
pencox

Estimation of a penalized Cox model with time-independent covariates
print.prcmlpmm

Print method for PRC-MLPMM model fits
summarize_lmms

Step 2 of PRC-LMM (computation of the predicted random effects)
prepare_longdata

Prepare longitudinal data for PRC
survpred_prcmlpmm

Compute the predicted survival probabilities obtained from the PRC models
summarize_mlpmms

Step 2 of PRC-MLPMM (computation of the predicted random effects)
performance_pencox

Predictive performance of the penalized Cox model with time-independent covariates
summary.prclmm

Summary method for PRC-LMM model fits
summary.prcmlpmm

Summary method for PRC-MLPMM model fits
survpred_prclmm

Compute the predicted survival probabilities obtained from the PRC models
getmlpmm

Extract model fits from step 1 of PRC-LMM
fit_lmms

Step 1 of PRC-LMM (estimation of the linear mixed models)
draw_cluster_bootstrap

Draw a cluster bootstrap sample from a data frame in long format
fit_prclmm

Step 3 of PRC-LMM (estimation of the penalized Cox model(s))
fit_mlpmms

Step 1 of PRC-MLPMM (estimation of the linear mixed models)
getlmm

Extract model fits from step 1 of PRC-LMM
fit_prcmlpmm

Step 3 of PRC-MLPMM (estimation of the penalized Cox model(s))
fitted_prclmm

A fitted PRC LMM
pbc2data

pbc2 dataset
fitted_prcmlpmm

A fitted PRC MLPMM