Package: CohortCharacteristics 0.4.0

Marti Catala

CohortCharacteristics: Summarise and Visualise Characteristics of Patients in the OMOP CDM

Summarise and visualise the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model (CDM).

Authors:Marti Catala [aut, cre], Yuchen Guo [aut], Mike Du [ctb], Kim Lopez-Guell [aut], Edward Burn [aut], Nuria Mercade-Besora [aut], Marta Alcalde [aut]

CohortCharacteristics_0.4.0.tar.gz
CohortCharacteristics_0.4.0.tar.gz(r-4.5-noble)CohortCharacteristics_0.4.0.tar.gz(r-4.4-noble)
CohortCharacteristics_0.4.0.tgz(r-4.4-emscripten)CohortCharacteristics_0.4.0.tgz(r-4.3-emscripten)
CohortCharacteristics.pdf |CohortCharacteristics.html✨
CohortCharacteristics/json (API)
NEWS

# Install 'CohortCharacteristics' in R:
install.packages('CohortCharacteristics', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

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

5.06 score 95 scripts 483 downloads 34 exports 45 dependencies

Last updated 16 hours agofrom:bde71e8f70. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 27 2024
R-4.5-linuxOKNov 27 2024

Exports:additionalColumnsavailablePlotColumnsavailableTableColumnsbenchmarkCohortCharacteristicsbindexportSummarisedResultgroupColumnsimportSummarisedResultmockCohortCharacteristicsmockDisconnectplotCharacteristicsplotCohortAttritionplotCohortCountplotCohortOverlapplotCohortTimingplotComparedLargeScaleCharacteristicsplotLargeScaleCharacteristicssettingssettingsColumnsstrataColumnssummariseCharacteristicssummariseCohortAttritionsummariseCohortCountsummariseCohortOverlapsummariseCohortTimingsummariseLargeScaleCharacteristicssuppresstableCharacteristicstableCohortAttritiontableCohortCounttableCohortOverlaptableCohortTimingtableLargeScaleCharacteristicstidy

Dependencies:backportsbitbit64blobCDMConnectorcheckmateclicliprcpp11crayonDBIdbplyrdiffobjdplyrfansifsgenericsgluehmsjsonlitelifecyclemagrittromopgenericsPatientProfilespillarpkgconfigprettyunitsprogresspurrrR6readrrlangsnakecasestringistringrtibbletidyrtidyselecttzdbutf8vctrsvisOmopResultsvroomwaldowithr

Summarise patient characteristics

Rendered fromsummarise_characteristics.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2024-11-26
Started: 2024-10-02

Summarise cohort overlap

Rendered fromsummarise_cohort_overlap.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2024-11-26
Started: 2024-10-02

Summarise cohort timing

Rendered fromsummarise_cohort_timing.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2024-11-26
Started: 2024-10-02

Summarise large scale characteristics

Rendered fromsummarise_large_scale_characteristics.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2024-11-26
Started: 2024-10-02

Readme and manuals

Help Manual

Help pageTopics
Available columns to use in 'facet' and 'colour' arguments in plot functions.availablePlotColumns
Available columns to use in 'header', 'groupColumn' and 'hide' arguments in table functions.availableTableColumns
Benchmark the main functions of CohortCharacteristics package.benchmarkCohortCharacteristics
It creates a mock database for testing CohortCharacteristics packagemockCohortCharacteristics
Create a ggplot from the output of summariseCharacteristics.plotCharacteristics
create a ggplot from the output of summariseLargeScaleCharacteristics.plotCohortAttrition
Plot the result of summariseCohortCount.plotCohortCount
Plot the result of summariseCohortOverlap.plotCohortOverlap
Plot summariseCohortTiming results.plotCohortTiming
create a ggplot from the output of summariseLargeScaleCharacteristics.plotComparedLargeScaleCharacteristics
create a ggplot from the output of summariseLargeScaleCharacteristics.plotLargeScaleCharacteristics
Summarise characteristics of cohorts in a cohort tablesummariseCharacteristics
Summarise attrition associated with cohorts in a cohort tablesummariseCohortAttrition
Summarise counts for cohorts in a cohort tablesummariseCohortCount
Summarise overlap between cohorts in a cohort tablesummariseCohortOverlap
Summarise timing between entries into cohorts in a cohort tablesummariseCohortTiming
This function is used to summarise the large scale characteristics of a cohort tablesummariseLargeScaleCharacteristics
Format a summarise_characteristics object into a visual table.tableCharacteristics
Create a visual table from the output of summariseCohortAttrition.tableCohortAttrition
Format a summarise_characteristics object into a visual table.tableCohortCount
Format a summariseOverlapCohort result into a visual table.tableCohortOverlap
Format a summariseCohortTiming result into a visual table.tableCohortTiming
Format a summarise_large_scale_characteristics object into a visual table.tableLargeScaleCharacteristics