Introduction | Database settings | CohortGenerator Module | TreatmentPatterns module | Execution
Package: TreatmentPatterns 3.1.2
Maarten van Kessel
TreatmentPatterns: Analyzes Real-World Treatment Patterns of a Study Population of Interest
Computes treatment patterns within a given cohort using the Observational Medical Outcomes Partnership (OMOP) common data model (CDM). As described in Markus, Verhamme, Kors, and Rijnbeek (2022) <doi:10.1016/j.cmpb.2022.107081>.
Authors:
TreatmentPatterns_3.1.2.tar.gz
TreatmentPatterns_3.1.2.zip(r-4.7)TreatmentPatterns_3.1.2.zip(r-4.6)TreatmentPatterns_3.1.2.zip(r-4.5)
TreatmentPatterns_3.1.2.tgz(r-4.6-any)TreatmentPatterns_3.1.2.tgz(r-4.5-any)
TreatmentPatterns_3.1.2.tar.gz(r-4.7-any)TreatmentPatterns_3.1.2.tar.gz(r-4.6-any)
TreatmentPatterns_3.1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TreatmentPatterns/json (API)
| # Install 'TreatmentPatterns' in R: |
| install.packages('TreatmentPatterns', repos = c('https://darwin-eu.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/darwin-eu/treatmentpatterns/issues
Pkgdown/docs site:https://darwin-eu-dev.github.io
Last updated from:fb4437f21a. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 276 | ||
| source / vignettes | OK | 342 | ||
| linux-release-x86_64 | OK | 212 | ||
| macos-release-arm64 | OK | 142 | ||
| macos-oldrel-arm64 | OK | 141 | ||
| windows-devel | OK | 3029 | ||
| windows-release | OK | 2925 | ||
| windows-oldrel | OK | 2786 | ||
| wasm-release | OK | 164 |
Exports:computePathwayscreateSankeyDiagramcreateSunburstPlotexecuteTreatmentPatternsexportexportPatientLevelgetResultsDataModelSpecificationsggSunburstplotEventDurationTreatmentPatternsResults
Dependencies:Andromedaaskpassbackportsbitbit64blobCDMConnectorcheckmateclicliprcpp11crayoncurlDBIdbplyrdplyrduckdbgenericsgluehmshttr2jsonlitelifecyclemagrittrmemuseomopgenericsopensslpillarpkgconfigprettyunitsprogresspurrrR6rappdirsreadrrlangsnakecasestringistringrsystibbletidyrtidyselecttzdbutf8vctrsvroomwithrzip
Strategus Execution
Last update: 2026-02-11
Started: 2026-02-11
Publications and Presentations
Publications | Presentations
Last update: 2026-02-11
Started: 2026-02-11
Evaluating Output
Saving results | Evaluating Results | treatmentPathways | countsAge, countsSex, and countsYear | summaryStatsTherapyDuration | metadata | Sunburst Plot & Sankey Diagram
Last update: 2025-08-25
Started: 2025-06-04
Best practices
Introduction | TLDR | Cohorts | Combinations | Settings
Last update: 2025-06-04
Started: 2025-06-04
Computing Pathways
Target and Event cohorts | Database interface | CDMConnector | DatabaseConnector | Analysis | Events | Combinations | Non-Significant Overlap | Overlap Method | Acute and Therapy Splits | Event Windows | Anchoring | windowStart and windowEnd | Changing the anchoring | Pathways | Running the analysis
Last update: 2025-06-04
Started: 2025-06-04
Defining Cohorts
ATLAS | Cohort information | Viral Sinusitis Cohort parameters | Cohort Entry Events | Inclusion Criteria | Cohort Exit | Cohort Eras | CapR | Cohorts for TreatmentPatterns
Last update: 2025-06-04
Started: 2025-06-04
Exporing Results
Exporting result objects | minCellCount and censorType | ageWindow | archiveName | Patient-Level Export
Last update: 2025-06-04
Started: 2025-06-04
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| computePathways | computePathways |
| createSankeyDiagram | createSankeyDiagram |
| createSunburstPlot | createSunburstPlot |
| doEraCollapseNew | doEraCollapseNew |
| executeTreatmentPatterns | executeTreatmentPatterns |
| export | export |
| exportPatientLevel | exportPatientLevel |
| getResultsDataModelSpecifications | getResultsDataModelSpecifications |
| ggSunburst | ggSunburst |
| plotEventDuration | plotEventDuration |
| TreatmentPatternsResults Class | TreatmentPatternsResults |
