RadaR is an application for intuitive, rapid and reproducible quality of care pattern analysis of infectious patients.
Preprint about RadaR available: https://doi.org/10.1101/347534
See a running example here.
RadaR was built in R , an open source programming language using the Shiny package, a web application framework for R. Users will need to download R in order to use RadaR and we suggest the use of RStudio. R is completely free to use. All required code can be found in this github repositroy.
RadaR works with standard csv-files (.csv). The variables needed for RadaR are as follows:
| Variable | Detail |
|---|---|
| id | Patient ID or study ID |
| adm_id | Admission ID |
| gender | Gender |
| adm_start_date | Admission date (YYYY-MM-DD) |
| adm_end_date | Discharge date (YYYY-MM-DD) |
| death_during_adm | Death during admission (TRUE/FALSE) |
| adm_route | Origin at admission |
| sub_specialty | Sub-specialty |
| specialty | General specialty (internal medicine, surgery, other) |
| birth_date | Birth date (YYYY-MM-DD) |
| Variable | Detail |
|---|---|
| id | Patient ID or study ID |
| ab_start_date | Start of antimicrobial treatment (YYYY-MM-DD) |
| ab_stop_date | Stop of antimicrobial treatment (YYYY-MM-DD) |
| ab_route | Administration route (e.g. IV, oral, ...) |
| atc_code | ATC code according WHO ATC classification system |
| ddd_per_day | Defined daily dose of antimicrobial according to WHO ATC classification system per day |
| Variable | Detail |
|---|---|
| id | Patient ID or study ID |
| specialty | Ordering specialty |
| antimicrobial susceptibility testing | Several columns of tested antimicrobial agents (e.g. amox, cipr etc.) with resistance results (R / I / S) |
| mo | Microbial ID (if test is positive) following the nomenclature of the Integrated Taxonomic Information System |
| material | Test material (currently supported: blood and urine) |
| test_date | Test date (YYYY-MM-DD) |
| test_number | Test number |
These data will be loaded, merged, and transformed for analysis upon start of RadaR
RadaR works with sensitive hospital data and is based on single observations on the patient level. All data for the running example is simulated and don't represent any real patients.
RadaR can be run locally on protected servers within institutions (for example: Shiny server) or on personal machines (mac, windows, linus).
RadaR was created at the Faculty of Medical Sciences of the University of Groningen and the Medical Microbiology & Infection Prevention department of the University Medical Center Groningen (UMCG) by Christian Luz, PhD Student.
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May be used for commercial purposes
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May be used for private purposes
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May be modified, although:
- Modifications must be released under the same license when distributing the package
- Changes made to the code must be documented
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May be distributed, although:
- Source code must be made available when the package is distributed
- A copy of the license and copyright notice must be included.
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Comes with a LIMITATION of liability
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Comes with NO warranty