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rpact

Confirmatory Adaptive Clinical Trial Design, Simulation, and Analysis.

Functional Range

  • Sample size and power calculation for
    • means (continuous endpoint)
    • rates (binary endpoint)
    • survival trials with
      • piecewise accrual time and intensity
      • piecewise exponential survival time
      • survival times that follow a Weibull distribution
  • Fixed sample design and designs with interim analysis stages
  • Simulation tool for means, rates, and survival data
    • Assessment of adaptive sample size/event number recalculations based on conditional power
    • Assessment of treatment selection strategies in multi-arm trials
  • Adaptive analysis of means, rates, and survival data
  • Adaptive designs and analysis for multi-arm trials
  • Adaptive analysis and simulation tools for enrichment design testing means, rates, and hazard ratios
  • Automatic boundary recalculations during the trial for analysis with alpha spending approach, including under- and over-running

Installation

Install the latest CRAN release via

install.packages("rpact")

Documentation

The documentation is hosted at https://www.rpact.org

Vignettes

The vignettes are hosted at https://www.rpact.com/vignettes

The rpact user group

The rpact project has an active user group consisting of decision-makers and users from the pharmaceutical industry and CROs, who meet regularly and, e.g., discuss best practices.

We invite you to be part of the rpact user group: benefit from know-how, shape open source development in Pharma!

Use on corporate computer systems

Please contact us to learn how to use rpact on FDA/GxP-compliant validated corporate computer systems and how to get a copy of the formal validation documentation that is customized and licensed for exclusive use by your company, e.g., to fulfill regulatory requirements. The validation documentation contains the personal access data for performing the installation qualification with testPackage().

www.rpact.com/contact

About

  • rpact is a comprehensive validated[1] R package for clinical research which
    • enables the design and analysis of confirmatory adaptive group sequential designs
    • is a powerful sample size calculator
    • is a free of charge open-source software licensed under LGPL-3
    • particularly, implements the methods described in the recent monograph by Wassmer and Brannath (2016)

For more information please visit www.rpact.org

  • RPACT is a company which offers
    • enterprise software development services
    • technical support for the rpact package
    • consultancy and user training for clinical research using R
    • validated software solutions and R package development for clinical research

For more information please visit www.rpact.com

  1. The rpact validation documentation is available exclusively for our customers and supporting members. For more information visit www.rpact.com/services/sla

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Version

Install

install.packages('rpact')

Monthly Downloads

2,004

Version

3.2.2

License

LGPL-3

Maintainer

Friedrich Pahlke

Last Published

February 28th, 2022

Functions in rpact (3.2.2)

AnalysisResultsMultiArm

Basic Class for Analysis Results Multi-Arm
AnalysisResultsEnrichmentInverseNormal

Analysis Results Enrichment Inverse Normal
AnalysisResultsGroupSequential

Analysis Results Group Sequential
AnalysisResultsFisher

Analysis Results Fisher
AnalysisResultsConditionalDunnett

Analysis Results Multi-Arm Conditional Dunnett
AnalysisResultsEnrichment

Basic Class for Analysis Results Enrichment
AnalysisResultsInverseNormal

Analysis Results Inverse Normal
AnalysisResults

Basic Class for Analysis Results
AnalysisResultsMultiArmFisher

Analysis Results Multi-Arm Fisher
AccrualTime

Accrual Time
ConditionalPowerResults

Conditional Power Results
Dataset_summary

Dataset Summary
FieldSet

Field Set
ParameterSet_as.data.frame

Coerce Parameter Set to a Data Frame
FieldSet_names

Names of a Field Set Object
Dataset

Dataset
SimulationResults

Class for Simulation Results
EventProbabilities

Event Probabilities
AnalysisResults_as.data.frame

Coerce AnalysisResults to a Data Frame
AnalysisResultsMultiArmInverseNormal

Analysis Results Multi-Arm Inverse Normal
PowerAndAverageSampleNumberResult_as.data.frame

Coerce Power And Average Sample Number Result to a Data Frame
AnalysisResults_names

Names of a Analysis Results Object
FieldSet_print

Print Field Set Values
SimulationResultsEnrichmentSurvival

Class for Simulation Results Enrichment Survival
FrameSet_as.matrix

Coerce Frame Set to a Matrix
AnalysisResultsMultiHypotheses

Basic Class for Analysis Results Multi-Hypotheses
ParameterSet

Parameter Set
NumberOfSubjects

Number Of Subjects
AnalysisResults_summary

Analysis Results Summary
PowerAndAverageSampleNumberResult

Power and Average Sample Number Result
PlotSettings

Plot Settings
SimulationResultsMultiArmSurvival

Class for Simulation Results Multi-Arm Survival
DatasetSurvival

Dataset of Survival Data
SimulationResultsMeans

Class for Simulation Results Means
DatasetRates

Dataset of Rates
DatasetMeans

Dataset of Means
SimulationResultsMultiArmMeans

Class for Simulation Results Multi-Arm Means
ParameterSet_print

Print Parameter Set Values
ClosedCombinationTestResults

Analysis Results Closed Combination Test
StageResults_names

Names of a Stage Results Object
SimulationResultsRates

Class for Simulation Results Rates
TrialDesign

Basic Trial Design
TrialDesignFisher

Fisher Design
TrialDesignCharacteristics

Trial Design Characteristics
SimulationResultsMultiArmRates

Class for Simulation Results Multi-Arm Rates
StageResultsSurvival

Stage Results of Survival Data
StageResults_as.data.frame

Coerce Stage Results to a Data Frame
TrialDesignGroupSequential

Group Sequential Design
dataEnrichmentSurvival

Enrichment Dataset of Survival Data
Dataset_print

Print Dataset Values
TrialDesignPlanRates

Trial Design Plan Rates
SimulationResultsEnrichmentMeans

Class for Simulation Results Enrichment Means
TrialDesignPlanMeans

Trial Design Plan Means
TrialDesignPlan

Basic Trial Design Plan
TrialDesignInverseNormal

Inverse Normal Design
dataEnrichmentRates

Enrichment Dataset of Rates
dataEnrichmentRatesStratified

Stratified Enrichment Dataset of Rates
SummaryFactory

Summary Factory
SimulationResultsEnrichmentRates

Class for Simulation Results Enrichment Rates
TrialDesign_as.data.frame

Coerce TrialDesign to a Data Frame
SimulationResults_print

Print Simulation Results
Trial_Design_Set_summary

Trial Design Set Summary
dataEnrichmentSurvivalStratified

Stratified Enrichment Dataset of Survival Data
dataRates

One-Arm Dataset of Rates
dataSurvival

One-Arm Dataset of Survival Data
TrialDesignCharacteristics_as.data.frame

Coerce TrialDesignCharacteristics to a Data Frame
TrialDesignPlanSurvival

Trial Design Plan Survival
TrialDesignConditionalDunnett

Conditional Dunnett Design
dataMultiArmMeans

Multi-Arm Dataset of Means
dataMeans

One-Arm Dataset of Means
TrialDesignPlan_as.data.frame

Coerce Trial Design Plan to a Data Frame
getDesignConditionalDunnett

Get Design Conditional Dunnett Test
StageResults

Basic Stage Results
ParameterSet_summary

Parameter Set Summary
PiecewiseSurvivalTime

Piecewise Exponential Survival Time
plotTypes

Get Available Plot Types
getDesignFisher

Get Design Fisher
TrialDesignSet_names

Names of a Trial Design Set Object
TrialDesignSet

Class for trial design sets.
TrialDesignSet_length

Length of Trial Design Set
TrialDesignSet_as.data.frame

Coerce Trial Design Set to a Data Frame
getAccrualTime

Get Accrual Time
getAnalysisResults

Get Analysis Results
getLogLevel

Get Log Level
getLambdaStepFunction

Get Lambda Step Function
getClosedCombinationTestResults

Get Closed Combination Test Results
getNumberOfSubjects

Get Number Of Subjects
getConditionalPower

Get Conditional Power
getClosedConditionalDunnettTestResults

Get Closed Conditional Dunnett Test Results
getLongFormat

Get Long Format
StageResultsMeans

Stage Results of Means
SimulationResultsSurvival

Class for Simulation Results Survival
dataEnrichmentMeans

Enrichment Dataset of Means
SimulationResults_names

Names of a Simulation Results Object
StageResultsRates

Stage Results of Rates
rcmd

Get Object R Code
getObservedInformationRates

Get Observed Information Rates
getFinalPValue

Get Final P Value
getFinalConfidenceInterval

Get Final Confidence Interval
getParameterCaption

Get Parameter Caption
getDesignGroupSequential

Get Design Group Sequential
getOutputFormat

Get Output Format
getDesignInverseNormal

Get Design Inverse Normal
getData

Get Simulation Data
getConditionalRejectionProbabilities

Get Conditional Rejection Probabilities
getPowerMeans

Get Power Means
getPowerSurvival

Get Power Survival
getPowerRates

Get Power Rates
getRawData

Get Simulation Raw Data for Survival
getPowerAndAverageSampleNumber

Get Power And Average Sample Number
getPlotSettings

Get Plot Settings
getEventProbabilities

Get Event Probabilities
dataEnrichmentMeansStratified

Stratified Enrichment Dataset of Means
getDesignCharacteristics

Get Design Characteristics
getDesignSet

Get Design Set
getDataset

Get Dataset
getSimulationEnrichmentRates

Get Simulation Enrichment Rates
dataMultiArmRates

Multi-Arm Dataset of Rates
dataMultiArmSurvival

Multi-Arm Dataset of Survival Data
getSimulationMeans

Get Simulation Means
getParameterName

Get Parameter Name
getRepeatedConfidenceIntervals

Get Repeated Confidence Intervals
getSimulationEnrichmentSurvival

Get Simulation Enrichment Survival
getSimulationMultiArmMeans

Get Simulation Multi-Arm Means
getRepeatedPValues

Get Repeated P Values
getStageResults

Get Stage Results
getSampleSizeMeans

Get Sample Size Means
getPiecewiseSurvivalTime

Get Piecewise Survival Time
getTestActions

Get Test Actions
getSampleSizeRates

Get Sample Size Rates
getSimulationMultiArmRates

Get Simulation Multi-Arm Rates
kable.ParameterSet

Create output in Markdown
getWideFormat

Get Wide Format
getSimulationMultiArmSurvival

Get Simulation Multi-Arm Survival
param_alternative_simulation

Parameter Description: Alternative for Simulation
kable

Create tables in Markdown
getSampleSizeSurvival

Get Sample Size Survival
param_design

Parameter Description: Design
param_beta

Parameter Description: Beta
param_dropoutTime

Parameter Description: Dropout Time
param_effectList

Parameter Description: Effect List
param_intersectionTest_MultiArm

Parameter Description: Intersection Test
param_design_with_default

Parameter Description: Design with Default
param_kMax

Parameter Description: Maximum Number of Stages
param_accrualIntensityType

Parameter Description: Accrual Intensity Type
param_maxNumberOfSubjects

Parameter Description: Maximum Number Of Subjects
param_maxNumberOfIterations

Parameter Description: Maximum Number Of Iterations
param_accrualTime

Parameter Description: Accrual Time
getSimulationEnrichmentMeans

Get Simulation Enrichment Means
param_directionUpper

Parameter Description: Direction Upper
param_digits

Parameter Description: Digits
param_allocationRatioPlanned

Parameter Description: Allocation Ratio Planned
param_allocationRatioPlanned_sampleSize

Parameter Description: Allocation Ratio Planned With Optimum Option
param_plotPointsEnabled

Parameter Description: Plot Points Enabled
param_calcEventsFunction

Parameter Description: Calculate Events Function
param_eventTime

Parameter Description: Event Time
param_activeArms

Parameter Description: Active Arms
param_bindingFutility

Parameter Description: Binding Futility
param_epsilonValue

Parameter Description: EpsilonValue
param_adaptations

Parameter Description: Adaptations
param_kappa

Parameter Description: Kappa
param_lambda2

Parameter Description: Lambda (2)
param_informationRates

Parameter Description: Information Rates
param_intersectionTest_Enrichment

Parameter Description: Intersection Test
getSimulationRates

Get Simulation Rates
param_accrualIntensity

Parameter Description: Accrual Intensity
param_pi1_survival

Parameter Description: Pi (1) for Survival Data
param_plannedEvents

Parameter Description: Planned Events
param_pi2_rates

Parameter Description: Pi (2) for Rates
param_legendPosition

Parameter Description: Legend Position On Plots
getSimulationSurvival

Get Simulation Survival
param_selectPopulationsFunction

Parameter Description: Select Populations Function
param_plotSettings

Parameter Description: Plot Settings
param_showSource

Parameter Description: Show Source
param_dropoutRate2

Parameter Description: Dropout Rate (2)
param_dropoutRate1

Parameter Description: Dropout Rate (1)
plot.Dataset

Dataset Plotting
param_lambda1

Parameter Description: Lambda (1)
param_three_dots

Parameter Description: "..."
param_plannedSubjects

Parameter Description: Planned Subjects
param_thetaH1

Parameter Description: Effect Under Alternative
param_typeOfDesign

Parameter Description: Type of Design
param_conditionalPower

Parameter Description: Conditional Power
param_effectMatrix

Parameter Description: Effect Matrix
param_typeOfSelection

Parameter Description: Type of Selection
param_alternative

Parameter Description: Alternative
param_calcSubjectsFunction

Parameter Description: Calculate Subjects Function
param_alpha

Parameter Description: Alpha
plot.SummaryFactory

Summary Factory Plotting
plot.TrialDesign

Trial Design Plotting
param_conditionalPowerSimulation

Parameter Description: Conditional Power
param_dataInput

Parameter Description: Data Input
param_includeAllParameters

Parameter Description: Include All Parameters
param_effectMeasure

Parameter Description: Effect Measure
param_gED50

Parameter Description: G ED50
plot.SimulationResults

Simulation Results Plotting
plot.EventProbabilities

Event Probabilities Plotting
utilitiesForSurvivalTrials

Survival Helper Functions for Conversion of Pi, Lambda, Median
writeDataset

Write Dataset
plot.StageResults

Stage Results Plotting
param_grid

Parameter Description: Grid (Output Specification Of Multiple Plots)
param_groups

Parameter Description: Number Of Treatment Groups
param_maxInformation

Parameter Description: Maximum Information
param_median2

Parameter Description: Median (2)
param_median1

Parameter Description: Median (1)
param_hazardRatio

Parameter Description: Hazard Ratio
param_stDevH1

Parameter Description: Standard Deviation Under Alternative
param_pi1_rates

Parameter Description: Pi (1) for Rates
param_palette

Parameter Description: Palette
param_stDevSimulation

Parameter Description: Standard Deviation for Simulation
param_stratifiedAnalysis

Parameter Description: Stratified Analysis
param_maxNumberOfEventsPerStage

Parameter Description: Max Number Of Events Per Stage
param_minNumberOfEventsPerStage

Parameter Description: Min Number Of Events Per Stage
plot.NumberOfSubjects

Number Of Subjects Plotting
param_informationEpsilon

Parameter Description: Information Epsilon
param_successCriterion

Parameter Description: Success Criterion
plot.ParameterSet

Parameter Set Plotting
param_nMax

Parameter Description: N_max
param_maxNumberOfSubjectsPerStage

Parameter Description: Maximum Number Of Subjects Per Stage
param_maxNumberOfSubjects_survival

Parameter Description: Maximum Number Of Subjects For Survival Endpoint
rpact

rpact - Confirmatory Adaptive Clinical Trial Design and Analysis
resetLogLevel

Reset Log Level
param_seed

Parameter Description: Seed
param_showStatistics

Parameter Description: Show Statistics
param_sided

Parameter Description: Sided
param_selectArmsFunction

Parameter Description: Select Arms Function
param_nPlanned

Parameter Description: N Planned
param_minNumberOfSubjectsPerStage

Parameter Description: Minimum Number Of Subjects Per Stage
param_threshold

Parameter Description: Threshold
param_three_dots_plot

Parameter Description: "..." (optional plot arguments)
param_populations

Parameter Description: Populations
param_rValue

Parameter Description: RValue
param_typeOfComputation

Parameter Description: Type Of Computation
param_stDev

Parameter Description: Standard Deviation
param_niceColumnNamesEnabled

Parameter Description: Nice Column Names Enabled
plot.AnalysisResults

Analysis Results Plotting
testPackage

Test Package
utilitiesForPiecewiseExponentialDistribution

The Piecewise Exponential Distribution
param_tolerance

Parameter Description: Tolerance
param_varianceOption

Parameter Description: Variance Option
param_slope

Parameter Description: Slope
plot.TrialDesignPlan

Trial Design Plan Plotting
param_normalApproximation

Parameter Description: Normal Approximation
rawDataTwoArmNormal

Raw Dataset Of A Two Arm Continuous Outcome With Covariates
printCitation

Print Citation
param_pi2_survival

Parameter Description: Pi (2) for Survival Data
param_stage

Parameter Description: Stage
plot.TrialDesignSet

Trial Design Set Plotting
param_typeOfShape

Parameter Description: Type Of Shape
param_userAlphaSpending

Parameter Description: User Alpha Spending
param_stageResults

Parameter Description: Stage Results
param_theta

Parameter Description: Theta
param_piecewiseSurvivalTime

Parameter Description: Piecewise Survival Time
param_thetaH0

Parameter Description: Theta H0
setLogLevel

Set Log Level
readDatasets

Read Multiple Datasets
writeDatasets

Write Multiple Datasets
readDataset

Read Dataset
setOutputFormat

Set Output Format
t,FieldSet-method

Field Set Transpose
[,TrialDesignSet-method

Access Trial Design by Index