Man pages for HealthInformaticsUT/Cohort2Trajectory
Package for creating patient orientated treatment trajectories from cohorts defined in OHDSI ATLAS
| addListVectorEl | Add element from list element's vector |
| addPersonalData | This function adds personal data to subjects: age, gender |
| cleanCohortData | This function eliminates patients which do not fulfill the... |
| cohort2TrajectoryConfiguration | C2T configuration for initiating the parameter values in the... |
| createMandatorySubDirs | Function which creates mandatory subdirectories and files to... |
| createStateList | Create a list of all states (as elements) for each state (as... |
| createTrajectories | Generate trajectories using the logic specified in the... |
| daysOverlap | Function for calculating overlap in date intervals |
| dot-toJSON | Function which converts text formatted JSON to digestible... |
| generateCohortSetCSV | Generate cohort set CSV |
| getCohortData | Get selected generated cohorts patient data |
| getCohorts | Get all generated cohort IDs |
| getDataForStudy | Import the data from CDM for the study |
| getInclusionTable | Build table for cohorts which shows the inclusion statistics |
| getTrajectoriesContinuous | Prepare patientData dataframe for msm package |
| getTrajectoriesDiscrete | Convert the imported cohort data to patient treatmnet... |
| idExists | Function for controlling whether patient exists in a cohort |
| is.nan.data.frame | Function for finding NaN values in a data.frame object |
| is_overlap | Function to check if two periods overlap |
| loadRenderTranslateSql | Load and translate SQL file or an explicit SQL query to... |
| loadSettings | Load settings of the study from trajectorySettings.csv... |
| merge_overlaps | Custom function to merge overlapping date ranges within each... |
| ordered_combinations | Create a vector with all possible combinations preserving the... |
| removeListVectorEl | Remove element from list element's vector |
| sanitize_filenames | Sanitize filenames not in correct format |
| sanitize_single | Function to sanitize a single string |
| save_object | Function for saving summary tables to path |
| updateMergedStates | Update Cohort State Information for Merged States |
