Risk Regression Models and Prediction Scores for Survival Analysis with Competing Risks.

Install

library(devtools)
install_github("tagteam/riskRegression")

References

The following references provide the methodological framework for the features of riskRegression.

0. T.A. Gerds and M.W. Kattan (2021). Medical Risk Prediction Models: With Ties to Machine Learning (1st ed.) Chapman and Hall/CRC https://doi.org/10.1201/9781138384484

1. T.A. Gerds and M. Schumacher. Consistent estimation of the expected Brier score in general survival models with right-censored event times. Biometrical Journal, 48(6):1029--1040, 2006.

2. T.A. Gerds and M. Schumacher. Efron-type measures of prediction error for survival analysis. Biometrics, 63(4):1283--1287, 2007.

3. T.A. Gerds, T. Cai, and M. Schumacher. The performance of risk prediction models. Biometrical Journal, 50(4):457--479, 2008.

4. U B Mogensen, H. Ishwaran, and T A Gerds. Evaluating random forests for survival analysis using prediction error curves. Journal of Statistical Software, 50(11), 2012.

5. P. Blanche, J-F Dartigues, and H. Jacqmin-Gadda. Estimating and comparing time-dependent areas under receiver operating characteristic curves for censored event times with competing risks. Statistics in Medicine, 32(30): 5381--5397, 2013.

6. Paul Blanche, Ce'cile Proust-Lima, Lucie Loube`re, Claudine Berr, Jean- Franc,ois Dartigues, and He'le`ne Jacqmin-Gadda. Quantifying and comparing dynamic predictive accuracy of joint models for longitudinal marker and time-to-event in presence of censoring and competing risks. Biometrics, 71 (1):102--113, 2015.

Functions predict.CauseSpecificCox{.verbatim}, predictCox{.verbatim} and iidCox{.verbatim}:

• Brice Ozenne, Anne Lyngholm Sorensen, Thomas Scheike, Christian Torp-Pedersen and Thomas Alexander Gerds. riskRegression: Predicting the Risk of an Event using Cox Regression Models. The R Journal (2017) 9:2, pages 440-460.

@article{gerds2006consistent,
  title =    {Consistent Estimation of the Expected {B}rier Score
                  in General Survival Models with Right-Censored Event
                  Times},
  author =   {Gerds, T.A. and Schumacher, M.},
  journal =  {Biometrical Journal},
  volume =   48,
  number =   6,
  pages =    {1029--1040},
  year =     2006,
  publisher =    {Wiley Online Library}
}

@article{gerds2007efron,
  title =    {Efron-Type Measures of Prediction Error for Survival
                  Analysis},
  author =   {Gerds, T.A. and Schumacher, M.},
  journal =  {Biometrics},
  volume =   63,
  number =   4,
  pages =    {1283--1287},
  year =     2007,
  publisher =    {Wiley Online Library}
}

@article{gerds2008performance,
  title =    {The performance of risk prediction models},
  author =   {Gerds, T.A. and Cai, T. and Schumacher, M.},
  journal =  {Biometrical Journal},
  volume =   50,
  number =   4,
  pages =    {457--479},
  year =     2008,
  publisher =    {Wiley Online Library}
}

@Article{mogensen2012pec,
  title =    {Evaluating random forests for survival analysis
                  using prediction error curves},
  author =   {Mogensen, U B and Ishwaran, H. and Gerds, T A},
  journal =  {Journal of Statistical Software},
  year =     2012,
  volume =   50,
  number =   11
}

@article{Blanche2013statmed,
  title =    "{Estimating and comparing time-dependent areas under
                  receiver operating characteristic curves for
                  censored event times with competing risks}",
  author =   {Blanche, P. and Dartigues, J-F and Jacqmin-Gadda,
                  H.},
  journal =  {Statistics in Medicine},
  volume =   32,
  number =   30,
  pages =    {5381--5397},
  year =     2013
}

@article{blanche2015,
  title =    {Quantifying and comparing dynamic predictive
                  accuracy of joint models for longitudinal marker and
                  time-to-event in presence of censoring and competing
                  risks},
  author =   {Blanche, Paul and Proust-Lima, C{\'e}cile and
                  Loub{\`e}re, Lucie and Berr, Claudine and Dartigues,
                  Jean-Fran{\c{c}}ois and Jacqmin-Gadda,
                  H{\'e}l{\`e}ne},
  journal =  {Biometrics},
  volume =   71,
  number =   1,
  pages =    {102--113},
  year =     2015,
  publisher =    {Wiley Online Library}
}

@article{ozenne2017,
  title =    {riskRegression: Predicting the Risk of an Event
                using Cox Regression Modelss},
  author =   {Ozenne, Brice and Sørensen, Anne Lyngholm 
                and Scheike, Thomas and Torp-Pedersen, Christian
                and Gerds, Thomas Alexander},
  journal =  {The R Journal},
  volume =   9,
  number =   2,
  pages =    {440--460},
  year =     2017
}