Files in CodelistGenerator

Identify Relevant Clinical Codes and Evaluate Their Use

NEWS.md README.md R/stratifyByDoseForm.R R/asConceptSetExpression.R R/subsetOnRouteCategory.R R/unionCodelists.R R/tableOrphanCodes.R R/availableDomains.R R/availableDoseForms.R R/stratifyByDoseUnit.R R/CodelistGenerator-package.R R/getATCCodes.R R/stratifyByDomain.R R/asCodelist.R R/utilities.R R/subset.R R/stratifyByVocabulary.R R/codesFromConceptSet.R R/benchmarkCodelistGenerator.R R/subsetOnIngredientRange.R R/documentation_helper.R R/getMappings.R R/availableDrugIngredients.R R/runSearch.R R/subsetToCodesInUse.R R/data.R R/getDrugIngredientCodes.R R/reexports.R R/intersectCodelists.R R/summariseOrphanCodes.R R/checks.R R/summariseCodeUse.R R/stratifyByConcept.R R/subsetOnDoseForm.R R/availableATC.R R/addConcepts.R R/getCandidateCodes.R R/asCodelistWithDetails.R R/availableRouteCategories.R R/compareCodelists.R R/functions.R R/stratifyByBrand.R R/buildAchillesTables.R R/stratify.R R/availableRelationshipIds.R R/tableAchillesCodeUse.R R/getDescendants.R R/mockVocabRef.R R/availableDoseUnits.R R/availableConceptClassIds.R R/subsetOnDomain.R R/searchStrategy.R R/summariseAchillesCodeUse.R R/vocabUtilities.R R/subsetOnDoseUnit.R R/excludeConcepts.R R/stratifyByRouteCategory.R R/subsetOnVocabulary.R R/availableVocabularies.R R/tableCodeUse.R inst/doc/a08_ManipulateCodelists.Rmd inst/doc/a09_RunCodelistDiagnostics.R inst/doc/a05_GenerateVocabularyBasedCodelist.R inst/doc/a04_GenerateCandidateCodelist.Rmd inst/doc/a04_GenerateCandidateCodelist.R inst/doc/a02_ExploreCDMvocabulary.Rmd inst/doc/a03_TypesOfCodelist.R inst/doc/a02_ExploreCDMvocabulary.R inst/doc/a01_GettingOmopCdmVocabularies.R inst/doc/a09_RunCodelistDiagnostics.Rmd inst/doc/a10_CodelistGeneratorBenchmark.Rmd inst/doc/a03_TypesOfCodelist.Rmd inst/doc/a06_ImportExport.R inst/doc/a01_GettingOmopCdmVocabularies.Rmd inst/doc/a05_GenerateVocabularyBasedCodelist.Rmd inst/doc/a10_CodelistGeneratorBenchmark.R inst/doc/a08_ManipulateCodelists.R inst/doc/a06_ImportExport.Rmd tests/testthat.R tests/testthat/test-availableRelationshipIds.R tests/testthat/test-dbms.R tests/testthat/test-asCodelistWithDetails.R tests/testthat/test-codesFrom.R tests/testthat/test-subsetOnVocabulary.R tests/testthat/test-subsetOnDoseForm.R tests/testthat/test-vocabUtilities.R tests/testthat/test-subsetOnIngredientRange.R tests/testthat/test-intersectCodelists.R tests/testthat/test-stratifyByBrand.R tests/testthat/test-getMappings.R tests/testthat/test-mockVocabRef.R tests/testthat/test-stratifyByVocabulary.R tests/testthat/test-availableDoseForms.R tests/testthat/test-synthea_sql_server.R tests/testthat/test-subsetOnDoseUnit.R tests/testthat/test-availableDrugIngredients.R tests/testthat/test-addConcepts.R tests/testthat/test-searchStrategy.R tests/testthat/test-stratifyByDomain.R tests/testthat/test-subsetOnRouteCategory.R tests/testthat/test-stratifyByRouteCategory.R tests/testthat/test-tableCodeUse.R tests/testthat/test-tableOrphanCodes.R tests/testthat/test-unionCodelists.R tests/testthat/test-summariseCodeUse.R tests/testthat/test-summariseAchillesCodeUse.R tests/testthat/test-data.R tests/testthat/test-stratifyByConcept.R tests/testthat/test-subsetOnDomain.R tests/testthat/test-stratifyByDoseUnit.R tests/testthat/test-availableVocabularies.R tests/testthat/test-summariseOrphanCodes.R tests/testthat/test-availableDomains.R tests/testthat/test-availableATC.R tests/testthat/test-getCandidateCodes.R tests/testthat/test-compareCodelists.R tests/testthat/test-excludeConcepts.R tests/testthat/test-stratifyByDoseForm.R tests/testthat/test-availableDoseUnit.R tests/testthat/test-tidyWords.R tests/testthat/test-buildAchillesTables.R tests/testthat/test-availableConceptClassIds.R tests/testthat/setup.R tests/testthat/test-asConceptSetExpression.R tests/testthat/test-availableRouteCategories.R tests/testthat/test-tableAchillesCodeUse.R tests/testthat/test-asCodelist.R tests/testthat/test-subsetToCodesInUse.R tests/testthat/test-drugCodes.R vignettes/a08_ManipulateCodelists.Rmd vignettes/a04_GenerateCandidateCodelist.Rmd vignettes/a02_ExploreCDMvocabulary.Rmd vignettes/a09_RunCodelistDiagnostics.Rmd vignettes/a10_CodelistGeneratorBenchmark.Rmd vignettes/a03_TypesOfCodelist.Rmd vignettes/a01_GettingOmopCdmVocabularies.Rmd vignettes/a05_GenerateVocabularyBasedCodelist.Rmd vignettes/a06_ImportExport.Rmd man/standardConceptDoc.Rd man/levelATCDoc.Rd man/tableCohortCodeUse.Rd man/associatedConceptClassIds.Rd man/tableCodeUse.Rd man/availableDoseForms.Rd man/stratifyByBrand.Rd man/summariseCodeUse.Rd man/getATCCodes.Rd man/headerDoc.Rd man/asConceptSetExpression.Rd man/stratifyByDoseForm.Rd man/summariseAchillesCodeUse.Rd man/availableRelationshipIds.Rd man/codesFromCohort.Rd man/reexports.Rd man/domainDoc.Rd man/bySexDoc.Rd man/availableATC.Rd man/doseFormToRoute.Rd man/subsetOnVocabulary.Rd man/byYearDoc.Rd man/getMappings.Rd man/doseFormDoc.Rd man/includeDescendantsDoc.Rd man/associatedRouteCategories.Rd man/associatedDoseUnits.Rd man/keepOriginalDocSubset.Rd man/availableRouteCategories.Rd man/tableAchillesCodeUse.Rd man/hideDoc.Rd man/countByDoc.Rd man/availableVocabularies.Rd man/stratifyByRouteCategory.Rd man/availableConceptClassIds.Rd man/nameStyleDoc.Rd man/searchStrategy.Rd man/subsetOnRouteCategory.Rd man/hideStrataDoc.Rd man/keepOriginalDoc.Rd man/associatedDrugIngredients.Rd man/excludeConcepts.Rd man/typeNarrowDoc.Rd man/benchmarkCodelistGenerator.Rd man/CodelistGenerator-package.Rd man/getCandidateCodes.Rd man/getDescendants.Rd man/doseUnitDoc.Rd man/associatedRelationshipIds.Rd man/availableDrugIngredients.Rd man/stratifyByVocabulary.Rd man/byConceptDoc.Rd man/routeCategoryDoc.Rd man/cdmDoc.Rd man/xDocCohort.Rd man/getDrugIngredientCodes.Rd man/minimumCountDoc.Rd man/groupColumnDoc.Rd man/tableDoc.Rd man/subsetOnDomain.Rd man/groupColumnStrataDoc.Rd man/subsetToCodesInUse.Rd man/tableOrphanCodes.Rd man/availableDomains.Rd man/subsetOnIngredientRange.Rd man/unionCodelists.Rd man/ingredientRangeDoc.Rd man/typeBroadDoc.Rd man/stratifyByDomain.Rd man/tableStyleDoc.Rd man/typeTableDoc.Rd man/associatedDomains.Rd man/mockVocabRef.Rd man/addConcepts.Rd man/dot-optionsDoc.Rd man/stratifyByConcept.Rd man/codelistNameDoc.Rd man/stratifyByDoseUnit.Rd man/ageGroupDoc.Rd man/asCodelist.Rd man/intersectCodelists.Rd man/subsetOnDoseForm.Rd man/levelICD10Doc.Rd man/compareCodelists.Rd man/associatedVocabularies.Rd man/summariseOrphanCodes.Rd man/xDoc.Rd man/subsetOnDoseUnit.Rd man/summariseCohortCodeUse.Rd man/vocabularyVersion.Rd man/headerStrataDoc.Rd man/availableDoseUnits.Rd man/associatedDoseForms.Rd man/asCodelistWithDetails.Rd man/codesFromConceptSet.Rd