Files in OHDSI/StudyDiagnostics
Diagnostics for OHDSI Cohorts
.Rbuildignore
.github/workflows/R_CMD_check_Hades.yaml
.github/workflows/R_CMD_check_main_weekly.yaml
.github/workflows/R_CMD_check_sqlite_only.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/CreatingAStudyPackage.html
docs/articles/DatabaseModeInDiagnosticsExplorer.html
docs/articles/RunningCohortDiagnostics.html
docs/articles/ViewingResultsUsingDiagnosticsExplorer.html
docs/articles/WhatIsCohortDiagnostics.html
docs/articles/index.html
docs/articles/publish.png
docs/articles/shiny.png
docs/authors.html
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docs/reference/getResultsDataModelSpecifications.html
docs/reference/index.html
docs/reference/launchDiagnosticsExplorer.html
docs/reference/migrateDataModel.html
docs/reference/runCohortRelationshipDiagnostics.html
docs/reference/runCohortTimeSeriesDiagnostics.html
docs/reference/uploadResults.html
docs/search.json
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/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/Migration_5-v3_3_0_remove_overlap_table.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
inst/sql/sqlite/migrations/Migration_5-v3_3_0_remove_overlap_table.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/deployPositConnectApp.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
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tests/testthat/cohorts/17692.json
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tests/testthat/cohorts/17693.json
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tests/testthat/cohorts/17694.json
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tests/testthat/cohorts/17695.json
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tests/testthat/cohorts/17720.json
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tests/testthat/cohorts/18342.json
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tests/testthat/cohorts/18345.json
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tests/testthat/cohorts/18351.json
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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
