Package: CohortSurvival 0.6.2
Edward Burn
CohortSurvival: Estimate Survival from Common Data Model Cohorts
Estimate survival using data mapped to the Observational Medical Outcomes Partnership common data model. Survival can be estimated based on user-defined study cohorts.
Authors:
CohortSurvival_0.6.2.tar.gz
CohortSurvival_0.6.2.zip(r-4.5)CohortSurvival_0.6.2.zip(r-4.4)
CohortSurvival_0.6.2.tgz(r-4.5-any)CohortSurvival_0.6.2.tgz(r-4.4-any)
CohortSurvival_0.6.2.tar.gz(r-4.5-noble)CohortSurvival_0.6.2.tar.gz(r-4.4-noble)
CohortSurvival_0.6.2.tgz(r-4.4-emscripten)CohortSurvival_0.6.2.tgz(r-4.3-emscripten)
CohortSurvival.pdf |CohortSurvival.html✨
CohortSurvival/json (API)
| # Install 'CohortSurvival' in R: |
| install.packages('CohortSurvival', repos = c('https://cranhaven.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/darwin-eu-dev/cohortsurvival/issues
Pkgdown site:https://darwin-eu-dev.github.io
Last updated 7 days agofrom:e7e080a849 (on package/CohortSurvival). Checks:4 OK, 3 ERROR. Indexed: no.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 07 2025 |
| R-4.5-win | ERROR | Mar 07 2025 |
| R-4.5-mac | ERROR | Mar 07 2025 |
| R-4.5-linux | ERROR | Mar 07 2025 |
| R-4.4-win | OK | Mar 07 2025 |
| R-4.4-mac | OK | Mar 07 2025 |
| R-4.4-linux | OK | Mar 07 2025 |
Exports::=.data%>%addCohortSurvivaladdCompetingRiskCohortSurvivalas_labelas_nameasSurvivalResultattritionbindcohortCodelistcohortCountenquoenquosestimateCompetingRiskSurvivalestimateSingleEventSurvivalexportSummarisedResultgenerateDeathCohortSetimportSummarisedResultmockMGUS2cdmoptionsTableSurvivalplotSurvivalsettingssuppresstableSurvival
Dependencies:backportsbitbit64blobbroomCDMConnectorcheckmateclicliprclockcpp11crayonDBIdbplyrdplyrfansigenericsgluehmsjsonlitelatticelifecyclemagrittrMatrixomopgenericsPatientProfilespillarpkgconfigprettyunitsprogresspurrrR6readrrlangsnakecasestringistringrsurvivaltibbletidyrtidyselecttzdbutf8vctrsvroomwithr
Competing risk survival
Rendered froma02_Competing_risk_survival.Rmdusingknitr::rmarkdownon Mar 07 2025.Last update: 2025-03-07
Started: 2025-03-07
Further survival analyses
Rendered froma03_Further_survival_analyses.Rmdusingknitr::rmarkdownon Mar 07 2025.Last update: 2025-03-07
Started: 2025-03-07
Single outcome event of interest
Rendered froma01_Single_event_of_interest.Rmdusingknitr::rmarkdownon Mar 07 2025.Last update: 2025-03-07
Started: 2025-03-07
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Add survival information to a cohort table | addCohortSurvival |
| Add competing risk survival information to a cohort table | addCompetingRiskCohortSurvival |
| A tidy implementation of the summarised_characteristics object. | asSurvivalResult |
| Estimate survival for a given event and competing risk of interest using cohorts in the OMOP Common Data Model | estimateCompetingRiskSurvival |
| Estimate survival for a given event of interest using cohorts in the OMOP Common Data Model | estimateSingleEventSurvival |
| To create a death cohort | generateDeathCohortSet |
| Create mock CDM reference with survival::mgus2 dataset | mockMGUS2cdm |
| Additional arguments for the function tableSurvival() | optionsTableSurvival |
| Plot survival results | plotSurvival |
| Table with survival summary | tableSurvival |
