Package index • OncoPath

Main Analysis Functions

Core functions for oncological and pathological research

swimmerplot(): Swimmer Plot
swimmerplotClass: Swimmer Plot
waterfall(): Treatment Response: Patient-Level Burden
waterfallClass: Treatment Response Analysis (Waterfall) Class
diagnosticmeta(): Diagnostic Test Meta-Analysis for Pathology
diagnosticmetaClass: Diagnostic Test Meta-Analysis for Pathology
ihcheterogeneity(): IHC Heterogeneity Analysis

Diagnostic Test Functions

Functions for diagnostic test accuracy analysis

bootstrapIDI(): Bootstrap IDI calculation with confidence intervals

Utility Functions

Helper functions for data processing

raw_to_prob(): Convert raw test values to predicted probabilities using ROC curve

Datasets

Bundled example datasets

diagnostic_studies: Diagnostic Studies Sample Dataset
histopathology: Histopathology Sample Dataset
swimmerplot_sample: Swimmer Plot Sample Dataset
waterfall_percentage_basic: Waterfall Plot Percentage Basic Dataset
waterfall_raw_longitudinal: Waterfall Plot Raw Longitudinal Dataset

Package Information

Package startup and information

clinicopath_startup_message(): Package startup message