Introduction | 1. Setup & Data Preparation | 2. The Three-Step Analysis Workflow | Step 1: Determine the Optimal Number of Cuts | Choosing an Information Criterion | Step 2: Pinpointing the Exact Cut-point Values | 🔍 Automated Diagnostic Check: The Two-Tier Schoenfeld Diagnostic | Step 3: Validate Threshold Stability | 🔍 Automated Performance Grading: The Four-Tier Stability Assessment | 3. Advanced Visualisation & Reporting | 3.1 Group Composition Table | 3.2 Adjusted Hazard Ratio Forest Plot (type = "forest") | 3.3 Time-Dependent Diagnostics (type = "diagnostic") | 3.4 2D Cut-point Stability Surface (plot_validation()) | 3.5 Adjusted Kaplan-Meier Survival Curves (type = "outcome") | 3.6 Exporting Your Stratified Data | 4. Conclusion | 5. Session Information
Package: OptSurvCutR 0.10.0
Payton Yau
OptSurvCutR: Optimal Survival Cut-Point Discovery for Time-to-Event Analysis with 'OptSurvCutR'
Provides a robust workflow for optimal cut-point analysis in time-to-event ('survival') data. Functions determine the optimal number of cut-points via find_cutpoint_number(), find their precise locations via find_cutpoint() using systematic or genetic algorithms (via the 'rgenoud' package), and validate stability via bootstrapping using validate_cutpoint(). Features include covariate adjustment, parallel processing, and an extensible S3 plotting engine for clinical dashboards and diagnostics.
Authors:
OptSurvCutR_0.10.0.tar.gz
OptSurvCutR_0.10.0.tar.gz(r-4.7-arm64)OptSurvCutR_0.10.0.tar.gz(r-4.7-x86_64)OptSurvCutR_0.10.0.tar.gz(r-4.6-arm64)OptSurvCutR_0.10.0.tar.gz(r-4.6-x86_64)
OptSurvCutR_0.10.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
OptSurvCutR/json (API)
| # Install 'OptSurvCutR' in R: |
| install.packages('OptSurvCutR', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/paytonyau/optsurvcutr/issues
Pkgdown/docs site:https://paytonyau.github.io
Last updated from:fbe9ef48eb. Checks:6 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 241 | ||
| linux-devel-x86_64 | OK | 257 | ||
| source / vignettes | OK | 300 | ||
| linux-release-arm64 | OK | 242 | ||
| linux-release-x86_64 | OK | 252 | ||
| wasm-release | OK | 225 |
Exports:find_cutpointfind_cutpoint_numberplot_cutpoint_residualsplot_landmark_stratificationplot_optimisation_curveplot_validationtheme_optsurvvalidate_cutpoint
Dependencies:abindbackportsbootbroomcarcarDataclicodetoolscolorspacecommonmarkcorrplotcowplotcpp11curlDerivdigestdoBydoParalleldoRNGdplyrexactRankTestsfarverforeachforecastFormulafracdiffgenericsggplot2ggpubrggrepelggsciggsignifggtextgluegridExtragridtextgtableisobanditeratorsjpeglabelinglatticelifecyclelitedownlme4lmtestmagrittrmarkdownMASSMatrixMatrixModelsmaxstatmgcvmicrobenchmarkminqamodelrmvtnormnlmenloptrnnetnumDerivpatchworkpbkrtestpillarpkgconfigpngpolynompurrrquantregR6rbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreformulasrgenoudrlangrngtoolsrstatixS7scalesSparseMstringistringrsurvivalsurvminertibbletidyrtidyselecttimeDateurcautf8vctrsviridisLitewithrxfunxml2zoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Find Optimal Cut-points for Survival Data | find_cutpoint print.find_cutpoint summary.find_cutpoint |
| Find Optimal Number of Cut-points for Survival Data | find_cutpoint_number plot.find_cutpoint_number_result print.find_cutpoint_number_result summary.find_cutpoint_number_result |
| Diagnostic Plot of Schoenfeld Residuals | plot_cutpoint_residuals |
| Plot Landmark Stratification Curves | plot_landmark_stratification |
| Plot Optimisation Curve or Surface from Search | plot_optimisation_curve |
| Plot Cut-point Optimisation Stability Surface and Help Catalog Page | plot.validate_cutpoint_result plot_validation print.validate_cutpoint_result summary.validate_cutpoint_result |
| Master S3 Plot Router for find_cutpoint | plot.find_cutpoint |
| Custom Clinical Theme for OptSurvCutR | theme_optsurv |
| Validate an Optimal Cut-point Using Bootstrapping | validate_cutpoint |
