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

as.data.table.predictCox | Turn predictCox object into a 'data.table' |

as.data.table.predictCSC | Turn predictCSC object into a 'data.table' |

ate | Compute the average treatment effects via the g-formula |

autoplot.ate | Plot predictions from a Cause-specific Cox proportional... |

autoplot.predictCox | Plot predictions from a Cox model |

autoplot.predictCSC | Plot predictions from a Cause-specific Cox proportional... |

boot2pvalue | Compute the p.value from the distribution under H1 |

boxplot.Score | Boxplot risk quantiles |

calcSeCox | Computation of standard errors for predictions |

calcSeCSC | Standard error of the absolute risk predicted from... |

coef.CauseSpecificCox | Extract coefficients from a Cause-Specific Cox regression... |

coef.riskRegression | Extract coefficients from riskRegression model |

colCenter_cpp | Apply - by column |

colCumSum | Apply cumsum in each column |

colMultiply_cpp | Apply * by column |

colScale_cpp | Apply / by column |

colSumsCrossprod | Apply crossprod and colSums |

confBandCox | Compute quantiles of a gaussian process |

coxBaseEstimator | Extract the type of estimator for the baseline hazard |

coxCenter | Extract the mean value of the covariates |

coxDesign | Extract the design matrix used to train a Cox model |

coxFormula | Extract the formula from a Cox model |

coxLP | Compute the linear predictor of a Cox model |

coxN | Extract the number of observations from a Cox model |

coxSpecialStrata | Special character for strata in Cox model |

coxStrata | Define the strata for a new dataset |

coxVarCov | Extract the variance covariance matrix of the beta from a Cox... |

coxVariableName | Extract variable names from a model |

CSC | Cause-specific Cox proportional hazard regression |

dicreteRoot | Dichotomic search for monotone function |

extractStrata | Extract the information about the strata |

FGR | Formula wrapper for crr from cmprsk |

getSplitMethod | Input for data splitting algorithms |

iidCox | Extract i.i.d. decomposition from a Cox model |

influenceCoxTest | Influence test [Experimental!!] |

ipcw | Estimation of censoring probabilities |

Melanoma | Malignant melanoma data |

model.matrix.phreg | Extract design matrix for phreg objects |

Paquid | Paquid sample |

penalizedS3 | S3-wrapper for S4 function penalized |

plotAUC | ggplot AUC curve |

plotBrier | Plot Brier curve |

plotCalibration | Plot Calibration curve |

plotEffects | Plotting time-varying effects from a risk regression model. |

plotRisk | plot predicted risks |

plot.riskRegression | Plotting predicted risk |

plotROC | Plot ROC curves |

predict.CauseSpecificCox | Predicting absolute risk from cause-specific Cox models |

predictCox | Fast computation of survival probabilities, hazards and... |

predictCoxPL | Computation of survival probabilities from Cox regression... |

predict.FGR | Predict subject specific risks (cumulative incidence) based... |

predictRisk | Extrating predicting risks from regression models |

predict.riskRegression | Predict individual risk. |

print.ate | Print average treatment effects |

print.CauseSpecificCox | Print of a Cause-Specific Cox regression model |

print.FGR | Print of a Fine-Gray regression model |

print.influenceCoxTest | Print the results of the influence test |

print.predictCox | Print predictions from a Cox model |

print.predictCSC | Print predictions from a Cause-specific Cox proportional... |

print.riskRegression | Print function for riskRegression models |

print.Score | Print Score object |

print.subjectWeights | Print subject weights |

reconstructData | Reconstruct the original dataset |

riskRegression | Risk Regression Fits a regression model for the risk of an... |

rowCenter_cpp | Apply - by row |

rowCumSum | Apply cumsum in each row |

rowMultiply_cpp | Apply * by row |

rowScale_cpp | Apply / by row |

rowSumsCrossprod | Apply crossprod and rowSums |

rsquared | Explained variation for settings with binary, survival and... |

sampleData | Simulate data with binary or time-to-event outcome |

Score.list | Score risk predictions |

selectCox | Backward variable selection in the Cox regression model |

selectJump | Evaluate the influence function at selected times |

simMelanoma | Simulate data alike the Melanoma data |

sliceMultiply_cpp | Apply * by slice |

sliceScale_cpp | Apply / by slice |

splitStrataVar | Reconstruct each of the strata variables |

subjectWeights | Estimation of censoring probabilities at subject specific... |

summary.FGR | Summary of a Fine-Gray regression model |

summary.riskRegression | Summary of a risk regression model |

SurvResponseVar | Extract the time and event variable from a Cox model |

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