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CodelistGenerator: Identify Relevant Clinical Codes and Evaluate Their Use

Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.

Version:3.5.0
Depends:R (≥ 4.1)
Imports:DBI (≥ 1.1.0),dplyr (≥ 1.1.0),omopgenerics (≥ 1.1.1),rlang (≥ 1.0.0),glue (≥ 1.5.0),stringr (≥ 1.4.0),stringi (≥ 1.8.1),tidyr (≥ 1.2.0),cli (≥ 3.1.0),purrr,clock,PatientProfiles (≥ 1.3.1),vctrs,jsonlite,lifecycle
Suggests:covr,duckdb,CDMConnector (≥ 1.7.0),visOmopResults (≥1.0.0),knitr,rmarkdown,testthat (≥ 3.0.0),RPostgres,odbc,spelling,tibble,gt,flextable,omock,CohortConstructor
Published:2025-04-10
DOI:10.32614/CRAN.package.CodelistGenerator
Author:Edward BurnORCID iD [aut, cre], Marti CatalaORCID iD [ctb], Xihang ChenORCID iD [aut], Nuria Mercade-BesoraORCID iD [aut], Mike DuORCID iD [ctb], Danielle NewbyORCID iD [ctb], Marta Alcalde-HerraizORCID iD [ctb]
Maintainer:Edward Burn <edward.burn at ndorms.ox.ac.uk>
License:Apache License (≥ 2)
URL:https://darwin-eu.github.io/CodelistGenerator/
NeedsCompilation:no
Language:en-US
Materials:README,NEWS
CRAN checks:CodelistGenerator results

Documentation:

Reference manual:CodelistGenerator.html ,CodelistGenerator.pdf
Vignettes:a01_GettingOmopCdmVocabularies (source,R code)
a02_ExploreCDMvocabulary (source,R code)
a03_GenerateCandidateCodelist (source,R code)
a04_GenerateVocabularyBasedCodelist (source,R code)
a04b_icd_codes (source,R code)
a05_ExtractCodelistsfromJSONfile (source,R code)
a06_CreateSubsetsFromCodelist (source,R code)
a07_RunCodelistDiagnostics (source,R code)

Downloads:

Package source: CodelistGenerator_3.5.0.tar.gz
Windows binaries: r-devel:CodelistGenerator_3.5.0.zip, r-release:CodelistGenerator_3.5.0.zip, r-oldrel:CodelistGenerator_3.5.0.zip
macOS binaries: r-release (arm64):CodelistGenerator_3.5.0.tgz, r-oldrel (arm64):CodelistGenerator_3.5.0.tgz, r-release (x86_64):CodelistGenerator_3.5.0.tgz, r-oldrel (x86_64):CodelistGenerator_3.5.0.tgz
Old sources: CodelistGenerator archive

Reverse dependencies:

Reverse imports:CohortSymmetry,DrugUtilisation,PhenotypeR
Reverse suggests:CohortCharacteristics,CohortConstructor,CohortSurvival,MeasurementDiagnostics,OmopSketch,OmopViewer,PatientProfiles

Linking:

Please use the canonical formhttps://CRAN.R-project.org/package=CodelistGeneratorto link to this page.


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