getCohortData: Get selected generated cohorts patient data

In HealthInformaticsUT/Cohort2Trajectory: Package for creating patient orientated treatment trajectories from cohorts defined in OHDSI ATLAS

Get selected generated cohorts patient data

Description

This function queries all patient ID's in selected cohorts

Usage

getCohortData(
  cdm,
  studyEnv,
  selectedTarget,
  selectedStates,
  baseUrl = "http://localhost:8080/WebAPI",
  pathToStudy = studyEnv$pathToStudy,
  studyName = studyEnv$studyName,
  stateCohortLabels = NULL
)

Arguments

cdm	common data model reference object
studyEnv	environment created with cohort2TrajectoryConfiguration
selectedTarget	The sample cohort ID
selectedStates	Vector of included cohort ID's
baseUrl	the base URL for the WebApi instance
pathToStudy	path to folder which contains folder named after studyName
studyName	name chosen for study, is used as a folder name
stateCohortLabels	Vector of the customized labels of the state cohorts

Value

A dataframe with selected patients. Columns: cohort_definition_id, subject_id, cohort_start_date, cohort_end_date

HealthInformaticsUT/Cohort2Trajectory documentation built on March 1, 2025, 7:47 p.m.