# Reproduce Statistical Analyses and Meta-Analyses

## Documentation for package ‘reproducer’ version 0.6.0

- DESCRIPTION file.
- Package NEWS.

## Help Pages

A B C D E F G K L M N P R S T V

## -- A --

aggregateIndividualDocumentStatistics | aggregateIndividualDocumentStatistics
AnalyseResiduals | AnalyseResiduals

## -- B --

boxplotAndDensityCurveOnHistogram | boxplotAndDensityCurveOnHistogram
boxplotHV | boxplotHV

## -- C --

calc.a | calc.a
calc.b | calc.b
Calc4GroupNPStats | Calc4GroupNPStats
calcCliffdConfidenceIntervals | calcCliffdConfidenceIntervals
calcCliffdTestStatistics | calcCliffdTestStatistics
calcEffectSizeConfidenceIntervals | calcEffectSizeConfidenceIntervals
calcPHatConfidenceIntervals | calcPHatConfidenceIntervals
calcPHatMATestStatistics | calcPHatMATestStatistics
calculate2GBias | calculate2GBias
calculate2GType1Error | calculate2GType1Error
calculate4GBias | calculate4GBias
calculate4GType1Error | calculate4GType1Error
calculateBasicStatistics | calculateBasicStatistics
calculateCliffd | calculateCliffd
calculateGroupSummaryStatistics | calculateGroupSummaryStatistics
calculateHg | calculateHg

calculateKendalltaupb

@title calculateKendalltaupb @description Computes point bi-serial version of Kendall's tau plus a 1-alpha confidence interval using the method recommended by Long and Cliff (1997). The algorithm is based on Wilcox's code but was extended to return the consistent variance and the confidence intervals based on the t-distribution. Also added a Diagnostic parameter to output internal calculations.

calculateLargeSampleRandomizedBlockDesignEffectSizes | calculateLargeSampleRandomizedBlockDesignEffectSizes
calculateLargeSampleRandomizedDesignEffectSizes | calculateLargeSampleRandomizedDesignEffectSizes
CalculateLevel2ExperimentRData | CalculateLevel2ExperimentRData
calculateMABias | calculateMABias
calculateMAType1Error | calculateMAType1Error
calculateNullESAccuracy | calculateNullESAccuracy
calculatePhat | calculatePhat
calculatePopulationStatistics | calculatePopulationStatistics
CalculateRLevel1 | CalculateRLevel1
calculateSmallSampleSizeAdjustment | calculateSmallSampleSizeAdjustment
CatchError | CatchError
checkIfValidDummyVariable | checkIfValidDummyVariable
Ciolkowski09ESEM.MetaAnalysis.PBRvsCBRorAR | Ciolkowski09ESEM.MetaAnalysis.PBRvsCBRorAR data
Cliffd.test | Cliffd.test
constructEffectSizes | constructEffectSizes
ConstructLevel1ExperimentRData | ConstructLevel1ExperimentRData
crossoverResidualAnalysis | crossoverResidualAnalysis

## -- D --

densityCurveOnHistogram | densityCurveOnHistogram
doLM | doLM

## -- E --

effectSizeCI | effectSizeCI
ExtractExperimentData | ExtractExperimentData
ExtractGroupSizeData | ExtractGroupSizeData
ExtractMAStatistics | ExtractMAStatistics
ExtractSummaryStatisticsRandomizedExp | ExtractSummaryStatisticsRandomizedExp

## -- F --

fmt | fmt

## -- G --

getEffectSizesABBA | getEffectSizesABBA
getEffectSizesABBAIgnoringPeriodEffect | getEffectSizesABBAIgnoringPeriodEffect
getSimulationData | getSimulationData
getTheoreticalEffectSizeVariancesABBA | getTheoreticalEffectSizeVariancesABBA

## -- K --

KitchenhamEtAl.CorrelationsAmongParticipants.Abrahao13TSE | KitchenhamEtAl.CorrelationsAmongParticipants.Abrahao13TSE data
KitchenhamEtAl.CorrelationsAmongParticipants.Gravino15JVLC | KitchenhamEtAl.CorrelationsAmongParticipants.Gravino15JVLC data
KitchenhamEtAl.CorrelationsAmongParticipants.Madeyski10 | KitchenhamEtAl.CorrelationsAmongParticipants.Madeyski10 data
KitchenhamEtAl.CorrelationsAmongParticipants.Reggio15SSM | KitchenhamEtAl.CorrelationsAmongParticipants.Reggio15SSM data
KitchenhamEtAl.CorrelationsAmongParticipants.Ricca10TSE | KitchenhamEtAl.CorrelationsAmongParticipants.Ricca10TSE data
KitchenhamEtAl.CorrelationsAmongParticipants.Ricca14TOSEM | KitchenhamEtAl.CorrelationsAmongParticipants.Ricca14TOSEM data
KitchenhamEtAl.CorrelationsAmongParticipants.Romano18ESEM | KitchenhamEtAl.CorrelationsAmongParticipants.Romano18ESEM data
KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14EASE | KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14EASE data
KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14JVLC | KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14JVLC data
KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14TOSEM | KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello14TOSEM data
KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello15EMSE | KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello15EMSE data
KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello17TOSEM | KitchenhamEtAl.CorrelationsAmongParticipants.Scanniello17TOSEM data
KitchenhamEtAl.CorrelationsAmongParticipants.Torchiano17JVLC | KitchenhamEtAl.CorrelationsAmongParticipants.Torchiano17JVLC data
KitchenhamMadeyski.SimulatedCrossoverDataSets | KitchenhamMadeyski.SimulatedCrossoverDataSets data
KitchenhamMadeyskiBrereton.ABBAMetaAnalysisReportedResults | KitchenhamMadeyskiBrereton.ABBAMetaAnalysisReportedResults data
KitchenhamMadeyskiBrereton.ABBAReportedEffectSizes | KitchenhamMadeyskiBrereton.ABBAReportedEffectSizes data
KitchenhamMadeyskiBrereton.DocData | KitchenhamMadeyskiBrereton.DocData data
KitchenhamMadeyskiBrereton.ExpData | KitchenhamMadeyskiBrereton.ExpData data
KitchenhamMadeyskiBrereton.MetaAnalysisReportedResults | KitchenhamMadeyskiBrereton.MetaAnalysisReportedResults data
KitchenhamMadeyskiBrereton.ReportedEffectSizes | KitchenhamMadeyskiBrereton.ReportedEffectSizes data
KitchenhamMadeyskiBudgen16.COCOMO | KitchenhamMadeyskiBudgen16.COCOMO data
KitchenhamMadeyskiBudgen16.DiffInDiffData | KitchenhamMadeyskiBudgen16.DiffInDiffData data
KitchenhamMadeyskiBudgen16.FINNISH | KitchenhamMadeyskiBudgen16.FINNISH data
KitchenhamMadeyskiBudgen16.PolishData | KitchenhamMadeyskiBudgen16.PolishData data
KitchenhamMadeyskiBudgen16.PolishSubjects | KitchenhamMadeyskiBudgen16.PolishSubjects data
KitchenhamMadeyskiBudgen16.SubjectData | KitchenhamMadeyskiBudgen16.SubjectData

## -- L --

LaplaceDist | LaplaceDist

## -- M --

Madeyski15EISEJ.OpenProjects | Madeyski15EISEJ.OpenProjects data
Madeyski15EISEJ.PropProjects | Madeyski15EISEJ.PropProjects data
Madeyski15EISEJ.StudProjects | Madeyski15EISEJ.StudProjects data
Madeyski15SQJ.NDC | Madeyski15SQJ.NDC data
MadeyskiKitchenham.EUBASdata | MadeyskiKitchenham.EUBASdata data
MadeyskiKitchenham.MetaAnalysis.PBRvsCBRorAR | MadeyskiKitchenham.MetaAnalysis.PBRvsCBRorAR data
MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20190324 | MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20190324 data
MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20191022 | MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20191022 data
metaanalyse.Cliffd | metaanalyse.Cliffd
metaanalyse.PHat | metaanalyse.PHat
metaanalyseSmallSampleSizeExperiments | metaanalyseSmallSampleSizeExperiments
MetaAnalysisSimulations | MetaAnalysisSimulations
MunzelBrunner02.PGI | Patient Global Impression (PGI) data from Munzel and Brunner (2002)

## -- N --

NP2GMetaAnalysisSimulation | NP2GMetaAnalysisSimulation
NP4GMetaAnalysisSimulation | NP4GMetaAnalysisSimulation

## -- P --

pairedRankTest | pairedRankTest
pairedSignTest | pairedSignTest
percentageInaccuracyOfLargeSampleVarianceApproximation | percentageInaccuracyOfLargeSampleVarianceApproximation
PHat.test | PHat.test
PHatonesidedTestStatistics | PHatonesidedTestStatistics
PHattwosidedTestStatistics | PHattwosidedTestStatistics
plotOutcomesForIndividualsInEachSequenceGroup | plotOutcomesForIndividualsInEachSequenceGroup
PrepareForMetaAnalysisGtoR | PrepareForMetaAnalysisGtoR
printXTable | printXTable
proportionOfSignificantTValuesUsingCorrectAnalysis | proportionOfSignificantTValuesUsingCorrectAnalysis
proportionOfSignificantTValuesUsingIncorrectAnalysis | proportionOfSignificantTValuesUsingIncorrectAnalysis

## -- R --

RandomExperimentSimulations | RandomExperimentSimulations
RandomizedBlockDesignEffectSizes | RandomizedBlockDesignEffectSizes
RandomizedBlocksAnalysis | RandomizedBlocksAnalysis

RandomizedBlocksExperimentSimulations

title RandomizedBlocksExperimentSimulations description This function performs multiple simulations of 4 group balanced randomised Block experiments with two control groups and two treatment groups where one control group and one treatment group are assigned to block 1 and the other control group and treatment group are assigned to block 2. The simulations are based on one of four distributions and a specific group size. The function identifies the average value of the non-parametric effect sizes P-hat, Cliff' d and their variances and whether ot not the statistics were significant at the 0.05 level. We also present the values of the t-test as a comparison.

RandomizedDesignEffectSizes | RandomizedDesignEffectSizes
readExcelSheet | readExcelSheet
reproduceForestPlotRandomEffects | reproduceForestPlotRandomEffects()
reproduceMixedEffectsAnalysisWithEstimatedVarianceAndExperimentalDesignModerator | reproduceMixedEffectsAnalysisWithEstimatedVarianceAndExperimentalDesignModerator()
reproduceMixedEffectsAnalysisWithExperimentalDesignModerator | reproduceMixedEffectsAnalysisWithExperimentalDesignModerator()
reproduceMixedEffectsForestPlotWithExperimentalDesignModerator | reproduceMixedEffectsForestPlotWithExperimentalDesignModerator()
reproduceSimulationResultsBasedOn500Reps1000Obs | reproduceSimulationResultsBasedOn500Reps1000Obs
reproduceTablesOfPaperMetaAnalysisForFamiliesOfExperiments | reproduceTablesOfPaperMetaAnalysisForFamiliesOfExperiments
reproduceTableWithEffectSizesBasedOnMeanDifferences | reproduceTableWithEffectSizesBasedOnMeanDifferences()
reproduceTableWithPossibleModeratingFactors | reproduceTableWithPossibleModeratingFactors()
reproduceTableWithSourceDataByCiolkowski | reproduceTableWithSourceDataByCiolkowski
rSimulations | rSimulations

## -- S --

searchForIndustryRelevantGitHubProjects | searchForIndustryRelevantGitHubProjects
simulate2GExperimentData | simulate2GExperimentData
simulate4GExperimentData | simulate4GExperimentData
simulateRandomizedBlockDesignEffectSizes | simulateRandomizedBlockDesignEffectSizes
simulateRandomizedDesignEffectSizes | simulateRandomizedDesignEffectSizes

## -- T --

testfunctionParameterChecks | testfunctionParameterChecks
transformHgtoR | transformHgtoR
transformHgtoZr | transformHgtoZr
transformRtoHg | transformRtoHg
transformRtoZr | transformRtoZr
transformZrtoHg | transformZrtoHg
transformZrtoHgapprox | transformZrtoHgapprox
transformZrtoR | transformZrtoR

## -- V --

varStandardizedEffectSize | varStandardizedEffectSize