Files in EvidenceSynthesis
Synthesizing Causal Evidence in a Distributed Research Network

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NEWS.md README.md

NAMESPACE

DESCRIPTION

java/EvidenceSynthesis.jardesc

java/org/ohdsi/likelihood/SccsPartialLikelihood.java

java/org/ohdsi/likelihood/CachedModelLikelihood.java

java/org/ohdsi/likelihood/MultivariableCoxPartialLikelihood.java

java/org/ohdsi/likelihood/ExposureMisclassifiedLogisticLikelihood.java

java/org/ohdsi/likelihood/GridWithGradientsLikelihood.java

java/org/ohdsi/likelihood/CoxPartialLikelihood.java

java/org/ohdsi/likelihood/ConditionalPoissonLikelihood.java

java/org/ohdsi/mock/CyclopsNormalAnalysisMock.java

java/org/ohdsi/mock/MockCyclops.java

java/org/ohdsi/mock/CyclopsHierarchicalAnalysisMock.java

java/org/ohdsi/simpleDesign/SimpleLinearModelGradient.java

java/org/ohdsi/simpleDesign/SimpleLinearModelGradientWrtEffects.java

java/org/ohdsi/simpleDesign/SimpleLinearModelGradientWrtArgument.java

java/org/ohdsi/simpleDesign/ExposureMisclassifiedAnalysis.java

java/org/ohdsi/simpleDesign/CoxAnalysis.java

java/org/ohdsi/simpleDesign/ProfileNormalAnalysis.java

java/org/ohdsi/simpleDesign/CyclopsNormalAnalysis.java

java/org/ohdsi/simpleDesign/ProfileHierarchicalNormalAnalysis.java

java/org/ohdsi/simpleDesign/SimpleLinearModel.java

java/org/ohdsi/mcmc/Analysis.java

java/org/ohdsi/mcmc/Runner.java

java/org/ohdsi/data/ColumnMajorSortedCoxData.java

java/org/ohdsi/data/SortedCoxData.java

java/org/ohdsi/data/SccsData.java

java/org/ohdsi/data/GridWithGradientsData.java

java/org/ohdsi/data/CoxData.java

java/org/ohdsi/metaAnalysis/CoxDataModel.java

java/org/ohdsi/metaAnalysis/MetaAnalysis.java

java/org/ohdsi/metaAnalysis/HierarchicalMetaAnalysis.java

java/org/ohdsi/metaAnalysis/HalfCauchyOnStdDevPrior.java

java/org/ohdsi/metaAnalysis/GridWithGradientsDataModel.java

java/org/ohdsi/metaAnalysis/EmpiricalDataModel.java

java/org/ohdsi/metaAnalysis/NormalDataModel.java

java/org/ohdsi/metaAnalysis/ParametricDataModel.java

java/org/ohdsi/metaAnalysis/HalfNormalOnStdDevPrior.java

java/org/ohdsi/metaAnalysis/MultivariatePrior.java

java/org/ohdsi/metaAnalysis/ScalePrior.java

java/org/ohdsi/metaAnalysis/SccsDataModel.java

java/org/ohdsi/metaAnalysis/LocationHyperPrior.java

java/org/ohdsi/metaAnalysis/JointAnalysis.java

java/org/ohdsi/metaAnalysis/GammaOnPrecisionPrior.java

java/org/ohdsi/metaAnalysis/DataModel.java

java/org/ohdsi/metaAnalysis/SkewNormalDataModel.java

java/org/ohdsi/metaAnalysis/RobustMetaAnalysis.java

java/org/ohdsi/metaAnalysis/TLocationHyperPrior.java

java/org/ohdsi/metaAnalysis/ExtendingEmpiricalDataModel.java

java/org/ohdsi/metaAnalysis/MultivariableHierarchicalMetaAnalysis.java

java/org/ohdsi/hmc/HmcOptions.java

java/lib/JRI.jar

java/dr/inference/operators/hmc/MassPreconditioningOptions.java

java/dr/inference/operators/hmc/MassPreconditioner.java

java/dr/inference/operators/hmc/MassPreconditionScheduler.java

java/dr/inference/operators/hmc/HamiltonianMonteCarloOperator.java

java/dr/inference/regression/NewRegressionJNIWrapper.java

java/dr/inference/regression/RegressionInCyclops.java

java/dr/inference/regression/CyclopsRegressionModel.java

java/dr/inference/regression/CyclopsRegressionModelGradient.java

java/dr/inference/model/PriorPreconditioningProvider.java

java/dr/inference/hmc/JointGradient.java

java/dr/inference/hmc/ParallelGradientExecutor.java

java/dr/inference/hmc/ReversibleHMCProvider.java

R/EmpiricalCalibration.R R/LikelihoodApproximation.R R/BayesianMetaAnalysis.R R/Utilities.R R/EvidenceSynthesis.R R/BayesianBiasCorrection.R R/CohortMethod.R R/likelihoods-data.R R/FixedEffectMetaAnalysis.R R/MetaAnalysis.R R/Plots.R R/BayesianSynthesis.R R/HierarchicalMetaAnalysis.R R/Simulation.R inst/doc/VideoVignette.pdf inst/doc/VideoVignette.R inst/doc/BayesianBiasCorrection.Rmd inst/doc/VideoVignette.Rmd inst/doc/BayesianBiasCorrection.R inst/doc/NonNormalEffectSynthesis.pdf inst/doc/NonNormalEffectSynthesis.R inst/doc/BayesianBiasCorrection.pdf inst/doc/NonNormalEffectSynthesis.Rmd

inst/java/EvidenceSynthesis.jar

build/vignette.rds

tests/testthat.R tests/testthat/test-llAproximations.R tests/testthat/test-biasCorrection.R tests/testthat/test-nonNormalMetaAnalysis.R tests/testthat/test-plots.R tests/testthat/test-simpleBayesianModel.R tests/testthat/test-balance.R tests/testthat/test-hierarchicalMetaAnalysis.R tests/testthat/test-java.R tests/testthat/test-cyclopsViaJava.R

tests/testthat/resources/pooledFixedFxEstimate.rds

tests/testthat/resources/sccsPooledRandomFxEstimate.rds

tests/testthat/resources/populations.rds

tests/testthat/resources/pooledRandomFxEstimate.rds

tests/testthat/resources/sccsPopulations.rds

tests/testthat/resources/sccsPooledFixedFxEstimate.rds

vignettes/BayesianBiasCorrection.Rmd vignettes/VideoVignette.Rmd

vignettes/randomFxPooled.rds

vignettes/NonNormalEffectSynthesis.Rmd

data/ncLikelihoods.rda

data/likelihoodProfileLists.rda

data/ooiLikelihoods.rda

data/hmaLikelihoodList.rda

man/extractSourceSpecificEffects.Rd man/likelihoodProfileLists.Rd man/approximateSimplePosterior.Rd man/plotEmpiricalNulls.Rd man/detectApproximationType.Rd man/sequentialFitBiasDistribution.Rd man/createSccsSimulationSettings.Rd man/computeFixedEffectMetaAnalysis.Rd man/skewNormal.Rd man/ooiLikelihoods.Rd man/approximateHierarchicalNormalPosterior.Rd man/hermiteInterpolation.Rd man/supportsJava8.Rd man/constructDataModel.Rd man/hmaLikelihoodList.Rd man/plotPerDbPosterior.Rd man/plotPerDbMcmcTrace.Rd man/generateBayesianHMAsettings.Rd man/createApproximations.Rd man/plotLikelihoodFit.Rd man/plotCovariateBalances.Rd man/computeConfidenceInterval.Rd man/simulateMetaAnalysisWithNegativeControls.Rd man/createSimulationSettings.Rd man/plotPreparedPs.Rd man/preparePsPlot.Rd man/customFunction.Rd man/simulatePopulations.Rd man/buildLabelReferences.Rd man/plotBiasDistribution.Rd man/plotMetaAnalysisForest.Rd man/ncLikelihoods.Rd man/prepareSccsIntervalData.Rd man/computeBayesianMetaAnalysis.Rd man/computeHierarchicalMetaAnalysis.Rd man/summarizeChain.Rd man/loadCyclopsLibraryForJava.Rd man/EvidenceSynthesis-package.Rd man/approximateLikelihood.Rd man/fitBiasDistribution.Rd man/plotBiasCorrectionInference.Rd man/plotMcmcTrace.Rd man/biasCorrectionInference.Rd man/plotPosterior.Rd

EvidenceSynthesis documentation built on Aug. 26, 2025, 9:08 a.m.

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EvidenceSynthesis
Synthesizing Causal Evidence in a Distributed Research Network

Files in EvidenceSynthesis
Synthesizing Causal Evidence in a Distributed Research Network

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EvidenceSynthesis Synthesizing Causal Evidence in a Distributed Research Network

Files in EvidenceSynthesis Synthesizing Causal Evidence in a Distributed Research Network

R Package Documentation

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EvidenceSynthesis
Synthesizing Causal Evidence in a Distributed Research Network

Files in EvidenceSynthesis
Synthesizing Causal Evidence in a Distributed Research Network