Package index • CohortConstructor

Build base cohorts

conceptCohort(): Create cohorts based on a concept set

demographicsCohort(): Create cohorts based on patient demographics

measurementCohort(): Create cohorts measurement based cohorts

requireMinCohortCount(): Filter cohorts to keep only records for those with a minimum amount of subjects

requireInDateRange(): Require that an index date is within a date range

requireIsFirstEntry(): Restrict cohort to first entry

requireIsLastEntry(): Restrict cohort to last entry per person

requireIsEntry(): Restrict cohort to specific entry

Impose singular demographic requirements on existing cohorts

requireAge(): Restrict cohort on age

requireSex(): Restrict cohort on sex

requirePriorObservation(): Restrict cohort on prior observation

requireFutureObservation(): Restrict cohort on future observation

Impose multiple demographic requirements on existing cohorts

requireDemographics(): Restrict cohort on patient demographics

Impose requirements of presence or absence in other cohorts, concept sets, or table

requireCohortIntersect(): Require cohort subjects are present (or absence) in another cohort

requireConceptIntersect(): Require cohort subjects to have (or not have) events of a concept list

requireTableIntersect(): Require cohort subjects are present in another clinical table

Impose presence or absence of a death record within a time window

requireDeathFlag(): Require cohort subjects have (or do not have) a death record

Update cohort start and end dates

entryAtFirstDate(): Update cohort start date to be the first date from of a set of column dates

entryAtLastDate(): Set cohort start date to the last of a set of column dates

exitAtDeath(): Set cohort end date to death date

exitAtFirstDate(): Set cohort end date to the first of a set of column dates

exitAtLastDate(): Set cohort end date to the last of a set of column dates

exitAtObservationEnd(): Set cohort end date to end of observation

padCohortDate(): Set cohort start or cohort end

padCohortEnd(): Add days to cohort end

padCohortStart(): Add days to cohort start

trimDemographics(): Restrict cohort on patient demographics

trimToDateRange(): Trim cohort dates to be within a date range

Concatanate cohort entries

collapseCohorts(): Collapse cohort entries using a certain gap to concatenate records.

Filter cohorts

subsetCohorts(): Generate a cohort table keeping a subset of cohorts.

sampleCohorts(): Sample a cohort table for a given number of individuals.

Copy cohorts

copyCohorts(): Copy a cohort table

Split cohorts

yearCohorts(): Generate a new cohort table restricting cohort entries to certain years

stratifyCohorts(): Create a new cohort table from stratifying an existing one

Combine cohorts

intersectCohorts(): Generate a combination cohort set between the intersection of different cohorts.

unionCohorts(): Generate cohort from the union of different cohorts

Match cohorts

matchCohorts(): Generate a new cohort matched cohort

Mock data

mockCohortConstructor(): Function to create a mock cdm reference for CohortConstructor

Package benchmark

benchmarkCohortConstructor(): Run benchmark of CohortConstructor package

benchmarkData: Benchmarking results

Utility functions

renameCohort(): Utility function to change the name of a cohort.

addCohortTableIndex(): Add an index to a cohort table