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BuyseTest (version 3.3.1)

Generalized Pairwise Comparisons

Description

Implementation of the Generalized Pairwise Comparisons (GPC) as defined in Buyse (2010) for complete observations, and extended in Peron (2018) to deal with right-censoring. GPC compare two groups of observations (intervention vs. control group) regarding several prioritized endpoints to estimate the probability that a random observation drawn from one group performs better/worse/equivalently than a random observation drawn from the other group. Summary statistics such as the net treatment benefit, win ratio, or win odds are then deduced from these probabilities. Confidence intervals and p-values are obtained based on asymptotic results (Ozenne 2021 ), non-parametric bootstrap, or permutations. The software enables the use of thresholds of minimal importance difference, stratification, non-prioritized endpoints (O Brien test), and can handle right-censoring and competing-risks.

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Version

Install

install.packages('BuyseTest')

Monthly Downloads

948

Version

3.3.1

License

GPL-3

Issues

Pull Requests

Stars

Forks

Repository

https://github.com/bozenne/BuyseTest

Maintainer

Brice Ozenne

Last Published

July 7th, 2025

Functions in BuyseTest (3.3.1)

S4BuyseTest-confint

Extract Confidence Interval from GPC

S4BuyseTest-model.tables

Extract Summary for Class "S4BuyseTest"

S4BuysePower-summary

Summary Method for Class "S4BuysePower"

S4BuyseTest-class

Class "S4BuyseTest" (output of BuyseTest)

S4BuysePower-print

Print Method for Class "S4BuysePower"

S4BuyseTest-coef

Extract Summary Statistics from GPC

S4BuyseTest-nobs

Sample Size for Class "S4BuyseTest"

S4BuysePower-nobs

Sample Size for Class "S4BuysePower"

S4BuysePower-model.tables

Extract Summary for Class "S4BuysePower"

S4BuyseTest-plot

Graphical Display for GPC

S4BuysePower-show

Show Method for Class "S4BuysePower"

S4BuyseTest-print

Print Method for Class "S4BuyseTest"

confint.BuyseTestAuc

Extract the AUC value with its Confidence Interval

Dividy by a vector of values in each row

S4BuyseTest-vcov

Extract Uncertainty from GPC

Estimation of the Brier Score (EXPERIMENTAL)

as.data.table.performance

Convert Performance Objet to data.table

confint.BuyseTestBrier

Extract the Brier Score with its Confidence Interval

calcIntegralSurv2_cpp

C++ Function pre-computing the Integral Terms for the Peron Method in the survival case.

.rowCumProd_cpp

Apply cumprod in each row

Substract a vector of values in each row

coef.BuyseTestAuc

Extract the AUC Value

S4BuyseTest-update

Re-run two-group GPC

iid.BuyseTestBrier

Extract the idd Decomposition for the Brier Score

coef.BuyseTestBrier

Extract the Brier Score

Strata creation

S4BuyseTest-summary

Summary Method for Class "S4BuyseTest"

Extract the Survival and Survival Jumps

Extract i.i.d. decomposition from a prodlim model

Divide by a vector of values in each column

Column-wise cumulative sum

RCT In Metastatic Pancreatic Cancer Comparing Two Chemoterapy.

Substract a vector of values in each column

iid.BuyseTestAuc

Extract the idd Decomposition for the AUC

Extract the Number of Favorable, Unfavorable, Neutral, Uninformative pairs

Performing simulation studies with BuyseTest

RCT In Chronic Heart Failure Assessing an Inhibitor of the Renin-Angiotensin System.

Rare disease trial

.colMultiply_cpp

Multiply by a vector of values in each column

Extract the H-decomposition of the Estimator

autoplot.S4BuyseTest

Graphical Display for GPC

predict.BuyseTTEM

Prediction with Time to Event Model

Estimation of the Area Under the ROC Curve (EXPERIMENTAL)

Constrained Kaplan-Meier Estimator

performanceResample

Uncertainty About Performance of a Classifier (EXPERIMENTAL)

Extract the pseudovalues of the Estimator

plot.S3sensitivity

Graphical Display for Sensitivity Analysis

simCompetingRisks

Simulation of Gompertz competing risks data for the BuyseTest

Simulation of data for the BuyseTest

rbind.performance

Combine Resampling Results For Performance Objects

Extract the Score of Each Pair

Inference using MOVER in match designs (EXPERIMENTAL)

.calcIntegralSurv_cpp

C++ Function Computing the Integral Terms for the Peron Method in the survival case.

.rowMultiply_cpp

Multiply by a vector of values in each row

Row-wise cumulative sum

Sensitivity Analysis for the Choice of the Thresholds

.calcIntegralCif_cpp

C++ Function Computing the Integral Terms for the Peron Method in the presence of competing risks (CR).

summary.performance

Summary Method for Performance Objects

Check Arguments of a function.

Assess Performance of a Classifier

BuyseTest.options-methods

Methods for the class "BuyseTest.options"

BuyseTest.options

Global options for BuyseTest package

BuyseTest-package

BuyseTest package: Generalized Pairwise Comparisons

C++ function performing the pairwise comparison over several endpoints.

Time to Event Model

Multi-group GPC (EXPERIMENTAL)

S4BuysePower-class

Class "S4BuysePower" (output of BuyseTest)

Adjustment for Multiple Comparisons

BuyseTest.options-class

Class "BuyseTest.options" (global setting for the BuyseTest package)