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joint.Cox (version 3.16)

Joint Frailty-Copula Models for Tumour Progression and Death in Meta-Analysis

Description

Fit survival data and perform dynamic prediction under joint frailty-copula models for tumour progression and death. Likelihood-based methods are employed for estimating model parameters, where the baseline hazard functions are modeled by the cubic M-spline or the Weibull model. The methods are applicable for meta-analytic data containing individual-patient information from several studies. Survival outcomes need information on both terminal event time (e.g., time-to-death) and non-terminal event time (e.g., time-to-tumour progression). Methodologies were published in Emura et al. (2017) , Emura et al. (2018) , Emura et al. (2020) , Shinohara et al. (2020) , Wu et al. (2020) , and Emura et al. (2021) . See also the book of Emura et al. (2019) . Survival data from ovarian cancer patients are also available.

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Version

Install

install.packages('joint.Cox')

Monthly Downloads

275

Version

3.16

License

GPL-2

Maintainer

Takeshi Emura

Last Published

February 4th, 2022

Functions in joint.Cox (3.16)

I.spline

I-spline basis function
F.windows

Dynamic prediction of death under the joint frailty-copula model
Weibull.simu

Simulating data from the Weibull joint frailty-copula model
F.prediction

Dynamic prediction of death
M.spline

M-spline basis function
F.windows.Weibull

Dynamic prediction of death under the joint frailty-copula model (the Weibull baseline hazard functions)
F.window

Dynamic prediction of death under the joint frailty-copula model
F.KM

Prediction of death using the Kaplan-Meier estimator
F.window.Weibull

Dynamic prediction of death under the joint frailty-copula model (the Weibull baseline hazard functions)
cmprskCox.reg

The Competing Risks Version of Penalized Likelihood Estimation under the Joint Cox Models Between Tumour Progression and Death for Meta-Analysis
jointCox.Weibull.reg

Weibull-based Likelihood Estimation under the Joint Cox Models Between Tumour Progression and Death for Meta-Analysis
joint.Cox-package

Joint Frailty-Copula Models for Tumour Progression and Death in Meta-Analysis
splineCox.reg

Fitting the Cox model for survival data using a penalized spline model
dataOvarian

Survival data of 1003 ovarian cancer patients from 4 independent studies.
condCox.reg

Penalized Likelihood Estimation under the Joint Cox Models Between Tumour Progression and Death for Meta-Analysis; A Conditional Copula Approach
dataOvarian1

Data on time-to-recurrence and 158 gene expressions for 912 ovarian cancer patients from 4 independent studies.
dataOvarian2

Data on time-to-death and 128 gene expressions for 912 ovarian cancer patients from 4 independent studies.
jointCox.indep.reg

Penalized Likelihood Estimation under the Joint Cox Models Between Tumour Progression and Death for Meta-Analysis
jointCox.reg

Penalized Likelihood Estimation under the Joint Cox Models Between Tumour Progression and Death for Meta-Analysis