Package: CohortSurvival 0.5.2

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:Edward Burn [aut, cre], Kim Lopez [aut], Marti Catala [ctb], Xintong Li [ctb], Danielle Newby [ctb]

CohortSurvival_0.5.2.tar.gz
CohortSurvival_0.5.2.tar.gz(r-4.5-noble)CohortSurvival_0.5.2.tar.gz(r-4.4-noble)
CohortSurvival_0.5.2.tgz(r-4.4-emscripten)CohortSurvival_0.5.2.tgz(r-4.3-emscripten)
CohortSurvival.pdf |CohortSurvival.html✨
CohortSurvival/json (API)

# InstallCohortSurvival in R:

install.packages('CohortSurvival',repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/darwin-eu-dev/cohortsurvival/issues

19 exports 0.71 score 59 dependencies 345 downloads

Last updated 6 days agofrom:b17ac2fe4c

Exports::=.data %>%addCohortSurvival addCompetingRiskCohortSurvival as_label as_name asSurvivalResult benchmarkCohortSurvival enquo enquos estimateCompetingRiskSurvival estimateSingleEventSurvival generateDeathCohortSet mockMGUS2cdm optionsTableSurvival plotSurvival survivalParticipants tableSurvival

Dependencies:backports bit bit64 blob broom CDMConnector checkmate cli clipr colorspace cpp11 crayon DBI dbplyr diffobj dplyr fansi farver fs generics glue hms jsonlite labeling lattice lifecycle lubridate magrittr Matrix munsell omopgenerics PatientProfiles pillar pkgconfig prettyunits progress purrr R6 RColorBrewer readr rematch2 rlang scales snakecase stringi stringr survival tibble tidyr tidyselect timechange tzdb utf8 vctrs viridisLite visOmopResults vroom waldo withr

Single outcome event of interest

Rendered froma01_Single_event_of_interest.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2024-06-30
Started: 2023-12-08

Competing risk survival

Rendered froma02_Competing_risk_survival.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2024-06-30
Started: 2023-12-08

Further survival analyses

Rendered froma03_Further_survival_analyses.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2024-05-07
Started: 2024-05-07

Citation

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 performance of estimateSurvival function for benchmarking	benchmarkCohortSurvival
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
Participants contributing to a survival analysis	survivalParticipants
Table with survival summary	tableSurvival