mlr3proba (version 0.2.4)

mlr_measures_surv.song_tpr: Song and Zhou's TPR Survival Measure

Description

Calls survAUC::sens.sh().

Assumes Cox PH model specification.

times and lp_thresh are arbitrarily set to 0 to prevent crashing, these should be further specified.

Dictionary

This Measure can be instantiated via the dictionary mlr_measures or with the associated sugar function msr():

MeasureSurvSongTPR$new()
mlr_measures$get("surv.song_tpr")
msr("surv.song_tpr")

Meta Information

• Type: "surv"

• Range: \([0, 1]\)

• Minimize: FALSE

• Required prediction: lp

Super classes

mlr3::Measure -> mlr3proba::MeasureSurv -> mlr3proba::MeasureSurvIntegrated -> mlr3proba::MeasureSurvAUC -> MeasureSurvSongTPR

Active bindings

lp_thresh

numeric(1) Threshold for linear predictor when calculating TPR/TNR.

type

(character(1)) Type of measure, one of: 'cumulative', 'incident'.

Methods

Public methods

• MeasureSurvSongTPR$new()

• MeasureSurvSongTPR$clone()

• mlr3::Measure$aggregate()

• mlr3::Measure$format()

• mlr3::Measure$help()

• mlr3::Measure$score()

• mlr3proba::MeasureSurv$print()

Method new()

Creates a new instance of this R6 class.

Usage

MeasureSurvSongTPR$new(
  times = 0,
  lp_thresh = 0,
  type = c("incident", "cumulative")
)

Arguments

times

(numeric()) If integrate == TRUE then a vector of time-points over which to integrate the score. If integrate == FALSE then a single time point at which to return the score.

lp_thresh

numeric(1) Determines where to threshold the linear predictor for calculating the TPR/TNR.

type

(character(1)) Determines the type of score, one of: 'cumulative', 'incident'.

Method clone()

The objects of this class are cloneable with this method.

Usage

MeasureSurvSongTPR$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Details

All measures implemented from survAUC should be used with care, we are aware of problems in implementation that sometimes cause fatal errors in R. In future updates these measures will all be re-written and implemented directly in mlr3proba.

References

Song, Xiao, Zhou, Xiao-Hua (2008). “A semiparametric approach for the covariate specific ROC curve with survival outcome.” Statistica Sinica, 18(3), 947--65. https://www.jstor.org/stable/24308524.

See Also

Other survival measures: mlr_measures_surv.beggC, mlr_measures_surv.calib_alpha, mlr_measures_surv.calib_beta, mlr_measures_surv.chambless_auc, mlr_measures_surv.cindex, mlr_measures_surv.gonenC, mlr_measures_surv.grafSE, mlr_measures_surv.graf, mlr_measures_surv.harrellC, mlr_measures_surv.hung_auc, mlr_measures_surv.intloglossSE, mlr_measures_surv.intlogloss, mlr_measures_surv.logloss_se, mlr_measures_surv.logloss, mlr_measures_surv.maeSE, mlr_measures_surv.mae, mlr_measures_surv.mseSE, mlr_measures_surv.mse, mlr_measures_surv.nagelk_r2, mlr_measures_surv.oquigley_r2, mlr_measures_surv.rmseSE, mlr_measures_surv.rmse, mlr_measures_surv.schmid, mlr_measures_surv.song_auc, mlr_measures_surv.song_tnr, mlr_measures_surv.unoC, mlr_measures_surv.uno_auc, mlr_measures_surv.uno_tnr, mlr_measures_surv.uno_tpr, mlr_measures_surv.xu_r2

Other AUC survival measures: mlr_measures_surv.chambless_auc, mlr_measures_surv.hung_auc, mlr_measures_surv.song_auc, mlr_measures_surv.song_tnr, mlr_measures_surv.uno_auc, mlr_measures_surv.uno_tnr, mlr_measures_surv.uno_tpr

Other lp survival measures: mlr_measures_surv.beggC, mlr_measures_surv.calib_beta, mlr_measures_surv.chambless_auc, mlr_measures_surv.gonenC, mlr_measures_surv.hung_auc, mlr_measures_surv.nagelk_r2, mlr_measures_surv.oquigley_r2, mlr_measures_surv.song_auc, mlr_measures_surv.song_tnr, mlr_measures_surv.uno_auc, mlr_measures_surv.uno_tnr, mlr_measures_surv.uno_tpr, mlr_measures_surv.xu_r2