Files in OHDSI/StudyDiagnostics
Diagnostics for OHDSI Cohorts

.Rbuildignore
.github/workflows/R_CMD_check_Hades.yaml
.github/workflows/R_CMD_check_main_weekly.yaml
.gitignore
CohortDiagnostics.Rproj
DESCRIPTION
NAMESPACE
NEWS.md R/CohortCharacterizationDiagnostics.R R/CohortDiagnostics.R R/CohortLevelDiagnostics.R R/CohortRelationship.R R/ConceptIds.R R/ConceptSetUtils.R R/ConceptSets.R R/DataSourceInformation.R R/ExportCharacterization.R R/IncidenceRates.R R/InclusionRules.R R/Incremental.R R/MetaDataDiagnostics.R R/Private.R R/ResultsDataModel.R R/RunDiagnostics.R R/Shared.R R/Shiny.R R/TimeSeries.R R/VisitContext.R README.md
_pkgdown.yml
compare_versions
deploy.sh
docs/404.html
docs/articles/CohortDiagnosticsInPackageMode.html
docs/articles/CohortDiagnosticsInPackageMode_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/CohortDiagnosticsInPackageMode_files/header-attrs-2.10/header-attrs.js
docs/articles/CohortDiagnosticsInPackageMode_files/header-attrs-2.11/header-attrs.js
docs/articles/CohortDiagnosticsInPackageMode_files/header-attrs-2.7/header-attrs.js
docs/articles/CohortDiagnosticsInPackageMode_files/header-attrs-2.8/header-attrs.js
docs/articles/CohortDiagnosticsUsingWebApi.html
docs/articles/CohortDiagnosticsUsingWebApi_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/CohortDiagnosticsUsingWebApi_files/header-attrs-2.10/header-attrs.js
docs/articles/CohortDiagnosticsUsingWebApi_files/header-attrs-2.11/header-attrs.js
docs/articles/CohortDiagnosticsUsingWebApi_files/header-attrs-2.7/header-attrs.js
docs/articles/CohortDiagnosticsUsingWebApi_files/header-attrs-2.8/header-attrs.js
docs/articles/CreatingAStudyPackage.html
docs/articles/DatabaseModeInDiagnosticsExplorer.html
docs/articles/DatabaseModeInDiagnosticsExplorer_files/header-attrs-2.10/header-attrs.js
docs/articles/DatabaseModeInDiagnosticsExplorer_files/header-attrs-2.11/header-attrs.js
docs/articles/DatabaseModeInDiagnosticsExplorer_files/header-attrs-2.7/header-attrs.js
docs/articles/DatabaseModeInDiagnosticsExplorer_files/header-attrs-2.8/header-attrs.js
docs/articles/GeneratingStudyDiagnostics.html
docs/articles/RunningCohortDiagnostics.html
docs/articles/RunningCohortDiagnostics_files/header-attrs-2.10/header-attrs.js
docs/articles/RunningCohortDiagnostics_files/header-attrs-2.11/header-attrs.js
docs/articles/RunningCohortDiagnostics_files/header-attrs-2.7/header-attrs.js
docs/articles/RunningCohortDiagnostics_files/header-attrs-2.8/header-attrs.js
docs/articles/ViewingResultsUsingDiagnosticsExplorer.html
docs/articles/ViewingResultsUsingDiagnosticsExplorer_files/header-attrs-2.10/header-attrs.js
docs/articles/ViewingResultsUsingDiagnosticsExplorer_files/header-attrs-2.11/header-attrs.js
docs/articles/ViewingResultsUsingDiagnosticsExplorer_files/header-attrs-2.7/header-attrs.js
docs/articles/ViewingResultsUsingDiagnosticsExplorer_files/header-attrs-2.8/header-attrs.js
docs/articles/WhatIsCohortDiagnostics.html
docs/articles/WhatIsCohortDiagnostics_files/header-attrs-2.10/header-attrs.js
docs/articles/WhatIsCohortDiagnostics_files/header-attrs-2.11/header-attrs.js
docs/articles/WhatIsCohortDiagnostics_files/header-attrs-2.7/header-attrs.js
docs/articles/WhatIsCohortDiagnostics_files/header-attrs-2.8/header-attrs.js
docs/articles/index.html
docs/articles/shiny.png
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/CohortDiagnostics-package.html
docs/reference/CohortDiagnostics.html
docs/reference/Rplot001.png
docs/reference/breakDownIndexEvents.html
docs/reference/buildPostgresDatabaseSchema.html
docs/reference/checkInputFileEncoding.html
docs/reference/combineResultsDataModelCsvFiles.html
docs/reference/compareCohortCharacteristics.html
docs/reference/compareCovariateValueResult.html
docs/reference/computeCohortOverlap.html
docs/reference/createCohortTable.html
docs/reference/createConceptCountsTable.html
docs/reference/createDdl.html
docs/reference/createDdlPkConstraints.html
docs/reference/createDiagnosticsExplorerZip.html
docs/reference/createMergedResultsFile.html
docs/reference/createResultsDataModel.html
docs/reference/dropDdl.html
docs/reference/executeDiagnostics.html
docs/reference/extractConceptSetsJsonFromCohortJson.html
docs/reference/extractConceptSetsSqlFromCohortSql.html
docs/reference/findCohortIncludedSourceConcepts.html
docs/reference/findCohortOrphanConcepts.html
docs/reference/findOrphanConcepts.html
docs/reference/getCdmDataSourceInformation.html
docs/reference/getCohortCharacteristics.html
docs/reference/getCohortCountResult.html
docs/reference/getCohortCounts.html
docs/reference/getCohortOverlapResult.html
docs/reference/getCohortReference.html
docs/reference/getCohortsJsonAndSql.html
docs/reference/getConceptReference.html
docs/reference/getConceptSetDataDiagnostics.html
docs/reference/getConceptSetDiagnosticsResults.html
docs/reference/getCovariateReference.html
docs/reference/getCovariateValueResult.html
docs/reference/getDataMigrator.html
docs/reference/getDatabaseReference.html
docs/reference/getDefaultCovariateSettings.html
docs/reference/getDefaultVocabularyTableNames.html
docs/reference/getIncidenceProportion.html
docs/reference/getIncidenceRate.html
docs/reference/getIncidenceRateResult.html
docs/reference/getInclusionStatistics.html
docs/reference/getInclusionStatisticsFromFiles.html
docs/reference/getOmopVocabularyTables.html
docs/reference/getRecordCountOfInstantiatedCohorts.html
docs/reference/getResultsDataModelSpecification.html
docs/reference/getResultsDataModelSpecifications.html
docs/reference/getTimeDistributionResult.html
docs/reference/getTimeDistributions.html
docs/reference/getTimeReference.html
docs/reference/getUniqueConceptIds.html
docs/reference/guessCsvFileSpecification.html
docs/reference/guessModelSpecificationForCsv.html
docs/reference/importCsvFilesToPostgres.html
docs/reference/index.html
docs/reference/instantiateCohort.html
docs/reference/instantiateCohortSet.html
docs/reference/launchCohortExplorer.html
docs/reference/launchDiagnosticsExplorer.html
docs/reference/loadCohortsFromPackage.html
docs/reference/migrateDataModel.html
docs/reference/plotCohortComparisonStandardizedDifference.html
docs/reference/plotCohortOverlapVennDiagram.html
docs/reference/plotIncidenceProportion.html
docs/reference/plotIncidenceProportionByYear.html
docs/reference/plotTimeDistribution.html
docs/reference/plotincidenceRate.html
docs/reference/preMergeDiagnosticsFiles.html
docs/reference/recordCountOfInstantiatedCohorts.html
docs/reference/resolveCohortSqlToConceptIds.html
docs/reference/runCohortDiagnostics.html
docs/reference/runCohortDiagnosticsUsingExternalCounts.html
docs/reference/runCohortRelationshipDiagnostics.html
docs/reference/runCohortTimeSeriesDiagnostics.html
docs/reference/runStudyDiagnostics.html
docs/reference/takepackageDependencySnapshot.html
docs/reference/timeExecution.html
docs/reference/uploadPrintFriendly.html
docs/reference/uploadResults.html
docs/reference/writeOmopvocabularyTables.html
docs/sitemap.xml
extras/CodeToRun.R extras/CohortDiagnostics.pdf extras/EditIncrementalLogDiagnostics.R extras/ExampleOfHowToCreateStudyPackageWithHydra.R extras/HowToCreateCohortDefinitionSetObject.R extras/PackageMaintenance.R extras/TestOtherPlatforms.R extras/UploadToDatabase.R extras/exampleCodeToRun/CodeToRun_Eunomia.R extras/exampleCodeToRun/CodeToRun_Other.R extras/tests/TestCodeEunomiaPackageMode.R extras/tests/TestCodeRealDataPackageMode.R
inst/Cohorts.csv
inst/cohorts/14909.json
inst/cohorts/17492.json
inst/cohorts/17493.json
inst/cohorts/17720.json
inst/csv/domains.csv
inst/doc/RunningCohortDiagnostics.pdf inst/doc/ViewingResultsUsingDiagnosticsExplorer.pdf inst/doc/WhatIsCohortDiagnostics.pdf
inst/settings/resultsDataModelSpecification.csv
inst/shiny/DiagnosticsExplorer/DiagnosticsExplorer.Rproj
inst/shiny/DiagnosticsExplorer/README.md
inst/shiny/DiagnosticsExplorer/config-ohdsi-shiny.yml
inst/shiny/DiagnosticsExplorer/config.yml
inst/shiny/DiagnosticsExplorer/data/Table1SpecsLong.csv
inst/shiny/DiagnosticsExplorer/global.R
inst/shiny/DiagnosticsExplorer/renv.lock
inst/shiny/DiagnosticsExplorer/server.R inst/shiny/DiagnosticsExplorer/ui.R
inst/sql/postgresql/migrations/Migration_2-v3_1_0_ir_person_years.sql
inst/sql/postgresql/migrations/Migration_4-v3_2_1_cohort_name_field.sql
inst/sql/sql_server/14909.sql
inst/sql/sql_server/17492.sql
inst/sql/sql_server/17493.sql
inst/sql/sql_server/17720.sql
inst/sql/sql_server/CohortCounts.sql
inst/sql/sql_server/CohortEntryBreakdown.sql
inst/sql/sql_server/CohortRelationship.sql
inst/sql/sql_server/CohortSourceCodes.sql
inst/sql/sql_server/CohortSourceConceptsFromCcTable.sql
inst/sql/sql_server/CohortStandardConceptsFromCcTable.sql
inst/sql/sql_server/ComputeIncidenceRates.sql
inst/sql/sql_server/ComputeTimeSeries1.sql
inst/sql/sql_server/ComputeTimeSeries2.sql
inst/sql/sql_server/ComputeTimeSeries3.sql
inst/sql/sql_server/ComputeTimeSeries4.sql
inst/sql/sql_server/ComputeTimeSeries5.sql
inst/sql/sql_server/ComputeTimeSeries6.sql
inst/sql/sql_server/CreateCohortTable.sql
inst/sql/sql_server/CreateConceptCountTable.sql
inst/sql/sql_server/CreateConceptIdTable.sql
inst/sql/sql_server/CreateInclusionStatsTables.sql
inst/sql/sql_server/CreateResultsDataModel.sql
inst/sql/sql_server/DropOrphanConceptTempTables.sql
inst/sql/sql_server/GetCalendarYearRange.sql
inst/sql/sql_server/ObservedPerCalendarMonth.sql
inst/sql/sql_server/OrphanCodes.sql
inst/sql/sql_server/UpdateVersionNumber.sql
inst/sql/sql_server/VisitContext.sql
inst/sql/sql_server/inclusionStatsTables.sql
inst/sql/sql_server/migrations/Migration_1-v3_1_0_time_id.sql
inst/sql/sql_server/migrations/Migration_2-v3_1_0_ir_person_years.sql
inst/sql/sql_server/migrations/Migration_3-v3_2_0_suport_cohort_subsets.sql
inst/sql/sql_server/migrations/Migration_4-v3_2_1_cohort_name_field.sql
inst/sql/sql_server/migrations/README.md
inst/sql/sqlite/migrations/Migration_2-v3_1_0_ir_person_years.sql
inst/sql/sqlite/migrations/Migration_4-v3_2_1_cohort_name_field.sql
man-roxygen/CdmDatabaseSchema.R man-roxygen/CohortDatabaseSchema.R man-roxygen/CohortDef.R man-roxygen/CohortIds.R man-roxygen/CohortSetReference.R man-roxygen/CohortTable.R man-roxygen/Connection.R man-roxygen/DatabaseIds.R man-roxygen/ModeAndDetails.R man-roxygen/OracleTempSchema.R man-roxygen/TempEmulationSchema.R man-roxygen/VocabularyDatabaseSchema.R man-roxygen/atlasId.R man-roxygen/cdmVersion.R man/CohortDiagnostics-package.Rd man/checkInputFileEncoding.Rd man/createDiagnosticsExplorerZip.Rd man/createMergedResultsFile.Rd man/createResultsDataModel.Rd man/executeDiagnostics.Rd man/getCdmDataSourceInformation.Rd man/getCohortCounts.Rd man/getDataMigrator.Rd man/getDefaultCovariateSettings.Rd man/getDefaultVocabularyTableNames.Rd man/getResultsDataModelSpecifications.Rd man/launchDiagnosticsExplorer.Rd man/migrateDataModel.Rd man/runCohortRelationshipDiagnostics.Rd man/runCohortTimeSeriesDiagnostics.Rd man/uploadResults.Rd tests/testOracle.R tests/testPostgres.R tests/testRedshift.R tests/testSqlServer.R tests/testSqlite.R
tests/testthat/cohorts/14906.json
tests/testthat/cohorts/14906.sql
tests/testthat/cohorts/14907.json
tests/testthat/cohorts/14907.sql
tests/testthat/cohorts/14909.json
tests/testthat/cohorts/14909.sql
tests/testthat/cohorts/17492.json
tests/testthat/cohorts/17492.sql
tests/testthat/cohorts/17493.json
tests/testthat/cohorts/17493.sql
tests/testthat/cohorts/17692.json
tests/testthat/cohorts/17692.sql
tests/testthat/cohorts/17693.json
tests/testthat/cohorts/17693.sql
tests/testthat/cohorts/17694.json
tests/testthat/cohorts/17694.sql
tests/testthat/cohorts/17695.json
tests/testthat/cohorts/17695.sql
tests/testthat/cohorts/17720.json
tests/testthat/cohorts/17720.sql
tests/testthat/cohorts/18342.json
tests/testthat/cohorts/18342.sql
tests/testthat/cohorts/18345.json
tests/testthat/cohorts/18345.sql
tests/testthat/cohorts/18346.json
tests/testthat/cohorts/18346.sql
tests/testthat/cohorts/18347.json
tests/testthat/cohorts/18347.sql
tests/testthat/cohorts/18348.json
tests/testthat/cohorts/18348.sql
tests/testthat/cohorts/18349.json
tests/testthat/cohorts/18349.sql
tests/testthat/cohorts/18350.json
tests/testthat/cohorts/18350.sql
tests/testthat/cohorts/18351.json
tests/testthat/cohorts/18351.sql
tests/testthat/cohorts/18352.json
tests/testthat/cohorts/18352.sql
tests/testthat/cohorts/21402.json
tests/testthat/cohorts/21402.sql
tests/testthat/cohorts/CohortsToCreate.csv
tests/testthat/helper.R tests/testthat/setup.R tests/testthat/test-1-ResultsDataModel.R tests/testthat/test-2-againstCdm.R tests/testthat/test-3-Characterization.R tests/testthat/test-4-moduleCohortRelationship.R tests/testthat/test-5-moduleTimeSeries.R tests/testthat/test-6-incremental.R tests/testthat/test-7-DatabaseMigrations.R tests/testthat/test-other.R
vignettes/.gitignore
vignettes/CreatingAStudyPackage.Rmd vignettes/CreatingAStudyPackage.pdf vignettes/DatabaseModeInDiagnosticsExplorer.Rmd vignettes/DatabaseModeInDiagnosticsExplorer.pdf vignettes/RunningCohortDiagnostics.Rmd vignettes/ViewingResultsUsingDiagnosticsExplorer.Rmd vignettes/WhatIsCohortDiagnostics.Rmd
vignettes/publish.png
vignettes/shiny.png
OHDSI/StudyDiagnostics documentation built on Jan. 16, 2024, 3:40 a.m.