Package index • ClinicoPath

All functions

ClinicoPath-package ClinicoPath: ClinicoPath: Comprehensive Analysis for Clinicopathological Research

advancedbarplot(): Advanced Bar Charts - 5 Ways

advancedbarplotClass: Advanced Bar Charts - 5 Ways

advancedraincloud(): Advanced Raincloud Plot

advancedraincloudClass: Advanced Raincloud Plot with Longitudinal Support

advancedtree(): Advanced Decision Tree Analysis

advancedtreeClass: Advanced Decision Tree Analysis

agepyramid(): Age Pyramid

agepyramid2(): Age Pyramid

agepyramid2Class: Age Pyramid

agepyramidClass: Age Pyramid

agreement(): Interrater Reliability

agreementClass: Interrater Reliability Analysis

alluvial(): Alluvial Diagrams

alluvial2(): Alluvial Diagrams

alluvial2Class: Alluvial Plot

alluvialClass: Alluvial Plot

alluvialSurvival(): Treatment Pathway Alluvial Plot

alluvialSurvivalClass: Alluvial Survival Plot

autoeda(): Automated Exploratory Data Analysis

autoedaClass: Automated Exploratory Data Analysis using DataExplorer

basegraphics(): Base Graphics Visualization

basegraphicsClass: Base Graphics Visualization

bayesdca(): Bayesian Decision Curve Analysis

bayesdcaClass: Bayesian Decision Curve Analysis

bbcplots(): BBC-Style Data Visualization

bbcplotsClass: BBC-Style Data Visualization

benford(): Benford Analysis

benford2(): Benford Analysis 2

benford2Class: Benford's Law Analysis for Fraud Detection and Data Validation

benfordClass: Benford's Law Analysis

biomarkerresponse(): Biomarker Response Association

biomarkerresponseClass: Biomarker Response Association

bootstrapIDI(): Bootstrap IDI calculation with confidence intervals

bootstrapNRI(): Bootstrap NRI calculation with confidence intervals

calculate_auc(): Approximate AUC from sensitivity and specificity

calculate_nlr(): Calculate negative likelihood ratio

calculate_npv(): Calculate negative predictive value (NPV)

calculate_plr(): Calculate positive likelihood ratio

calculate_ppv(): Calculate positive predictive value (PPV)

calculate_sensitivity(): Calculate test sensitivity

calculate_specificity(): Calculate test specificity

cancer_biomarkers: Cancer Biomarker Diagnosis Dataset

cardiovascular_risk: Cardiovascular Risk Assessment Dataset

checkdata(): Data Quality Assessment

chisqposttest(): Chi-Square Post-Hoc Tests

chisqposttestClass: Chi-Square Post-Hoc Tests - Enhanced Implementation

chisqposttest_test_data: Test Dataset for Chi-Square Post-Hoc Analysis

ciSingle(): Confidence Intervals for Mean Values

ciSingleClass: Enhanced confidence intervals for mean values

classification(): Clinical Classification

classificationClass: Enhanced Clinical Classification Analysis

clinicopath_startup_message(): Package startup message

clinmon(): Clinical Hemodynamic Monitoring

clinmonClass: Clinical Hemodynamic Monitoring

coefplot(): Coefficient Plots

coefplotClass: Coefficient Plots

comparingSurvival(): Comparing Survival Outcomes

comparingSurvivalClass: Comparing Survival Outcomes

competingsurvival(): Overall, Cause Specific, and Competing Survival

competingsurvivalClass: Competing Survival Analysis

computeNRI(): Compute Net Reclassification Index (NRI)

consort(): CONSORT Flowchart

consortClass: CONSORT Flowchart

contTables(): Contingency Tables

contTablesPaired(): Paired Samples Contingency Tables

continuousrelationship(): Continuous Variable Relationship Analysis

continuousrelationshipClass: Continuous Variable Relationship Analysis

cotest(): Co-Testing Analysis

cotestClass: Co-Testing Analysis

coxdiagnostics(): Cox Proportional Hazards Model Diagnostics

coxdiagnosticsClass: Cox Proportional Hazards Model Diagnostics

crosstable(): Cross Tables

crosstable2(): Cross Tables

crosstable2Class: Cross Table for Clinicopathological Comparisons

crosstableClass: Cross Table for Clinicopathological Comparisons

crosstablepivot(): Enhanced Cross Tables (Pivot)

crosstablepivotClass: Enhanced Cross Tables with Pivot Functionality

dataquality(): Data Quality Assessment

dataqualityClass: Data Quality Assessment

datecorrection(): Date Field Correction

datecorrectionClass: Date Field Correction and Standardization

decision(): Medical Decision

decision2(): Decision 2 for using init

decisionClass: Medical Decision Analysis

decisioncalculator(): Medical Decision Calculator

decisioncalculatorClass: Decision Calculator

decisioncombine(): Combine Medical Decision Tests

decisioncombineClass: Combine Medical Decision Tests

decisioncompare(): Compare Medical Decision Tests

decisioncompareClass: Compare Medical Decision Tests

decisioncurve(): Decision Curve Analysis

decisioncurveClass: Decision Curve Analysis

decisiongraph(): Decision Tree Graph

decisiongraphClass: Decision Tree Graph for Cost-Effectiveness Analysis

decisionpanel(): Decision Panel Optimization

decisionpanelClass: Decision Panel Optimization

dendrogram(): Dendrogram

desctools(): Advanced Statistical Tests

desctoolsClass: Advanced Statistical Tests

.validate_doi(): Find Retracted Papers from DOI

drug_response: Drug Response Prediction Dataset

economistplots(): Economist-Style Distribution Plots

economistplotsClass: Economist-Style Distribution Plots

enhancedcrosstable(): Enhanced Cross Tables with danchaltiel/crosstable

enhancedcrosstableClass: Enhanced Cross Tables with danchaltiel/crosstable

enhancedtables(): Enhanced Tables with gt

enhancedtablesClass: Enhanced Tables with gt

eurostatmap(): Eurostat Map

eurostatmapClass: Eurostat Map

flowchart(): Study Flowchart

flowchartClass: Study Flowchart

ggflowchart(): ggFlowchart

ggflowchartClass: ggFlowchart - Modern Flowcharts with ggplot2

ggoncoplot(): Genomic Landscape Visualization

ggoncoplotClass: Genomic Landscape Visualization

ggprism(): GraphPad Prism Style Plots

ggprismClass: GraphPad Prism Style Plots

ggsegmentedtotalbar(): Segmented Total Bar Charts

ggsegmentedtotalbarClass: Segmented Total Bar Charts

grafify(): Scientific Visualization with Grafify

grafifyClass: Scientific Visualization with Grafify

`%||%`: Missing Data Analysis and Multiple Imputation

groupedforest(): Grouped Hazard Forest Plot

groupedforestClass: Grouped Hazard Forest Plot for Subgroup Analysis

groupsummary(): Group and Summarize

groupsummaryClass: Group and Summarize

gtsummary(): Publication-Ready Tables with gtsummary

gtsummaryClass: Publication-Ready Tables with gtsummary

hullplot(): Hull Plot

hullplotClass: Hull Plot for Group Visualization

icccoeff(): Intraclass Correlation Coefficient

icccoeffClass: Intraclass Correlation Coefficient

ihcstats(): IHC Expression Analysis

ihcstatsClass: IHC Expression Analysis

is_in_range(): Check if value is within valid range

jcomplexupset(): Complex UpSet Plot Visualization

jcomplexupsetClass: Complex UpSet Plot Visualization

jcorrelation(): Correlation Analysis

jcorrelationClass: Correlation Analysis

jextractggstats(): Statistical Data Extraction from ggstatsplot

jextractggstatsClass: Statistical Data Extraction from ggstatsplot

jforester(): Forest Plot Visualization

jforesterClass: Forest Plot Visualization

jforestmodel(): Forest Plot Visualization

jforestmodelClass: Forest Plot Visualization

jggheatmap(): Advanced Heatmap Visualization

jggridges(): Ridge Plot Visualization

jggridgesClass: Ridge Plot Visualization

jggsankeyfier(): Sankey & Alluvial Diagrams

jggstats(): Enhanced Statistical Visualization

jiwillsurvive(): Intuitive Survival Analysis

jiwillsurviveClass: Intuitive Survival Analysis

jjarcdiagram(): Arc Diagram

jjarcdiagramClass: Arc Diagram

jjbarstats(): Bar Charts

jjbarstatsClass: Bar Charts

jjbetweenstats(): Box-Violin Plots to Compare Between Groups

jjbetweenstatsClass: Violin Plots to Compare Between Groups

jjcorrmat(): Correlation Matrix

jjcorrmatClass: Correlation Matrix

jjdotplotstats(): Dot Chart

jjdotplotstatsClass: Dot Chart

jjhistostats(): Histogram

jjhistostatsClass: Histogram

jjpiestats(): Pie Charts

jjpiestatsClass: Pie Charts

jjradarplot(): Radar Plot

jjradarplotClass: Radar Plot

jjridgestats(): Ridgeline Plot

jjridgestatsClass: Enhanced Ridgeline Plot

jjriverplot(): River Plots

jjriverplotClass: River Plots

jjscatterstats(): Scatter Plot

jjscatterstatsClass: Scatter Plot

jjstreamgraph(): StreamGraphs

jjstreamgraphClass: StreamGraphs

jjtreemap(): Treemap

jjtreemapClass: Treemap

jjwithinstats(): Box-Violin Plots to Compare Within Groups

jjwithinstatsClass: Violin Plots to Compare Within Group

jpps(): Predictive Power Score Analysis

jppsClass: Predictive Power Score Analysis

jscattermore(): High-Performance Scatter Plots

jsjplot(): Social Science Statistical Visualization

jsummarytools(): Summary Statistics with summarytools

jviolin(): Professional Violin Plot

jviolinClass: Violin Plot

jvisr(): Clinical Research Visualization with visR

jwaffle(): Waffle Charts

jwaffleClass: Waffle Charts

kappaSizeCI(): Confidence Interval Approach for the Number of Subjects Required

kappaSizeCIClass: Confidence Interval Approach for the Number of Subjects Required

kappaSizeFixedN(): Lowest Expected Value for a fixed sample size

kappaSizeFixedNClass: Lowest Expected Value for a fixed sample size

kappaSizePower(): Power Approach for the Number of Subjects Required

kappaSizePowerClass: Power Analysis for Inter-rater Agreement Studies

lassocox(): Lasso-Cox Regression

lassocoxClass: Lasso-Cox Regression for Variable Selection in Survival Analysis

linechart(): Line Chart

linechartClass: Line Chart for Time Series and Trend Analysis

load_required_package(): Load required packages with error handling

lollipop(): Lollipop Chart

lollipopClass: Lollipop Charts for Categorical Data Visualization

missingdata(): Missing Data Analysis and Imputation

modelbuilder(): Prediction Model Builder

multisurvival(): Multivariable Survival Analysis

multisurvivalClass: Multivariable Survival Analysis

nogoldstandard(): Analysis Without Gold Standard

nogoldstandardClass: Analysis Without Gold Standard

nomogrammer(): Fagan Nomogram for Diagnostic Test Analysis

oddsratio(): Odds Ratio Table and Plot

oddsratioClass: Odds Ratio Analysis for Binary Outcomes

oneSurvival(): One Survival Outcome

oneSurvivalClass: Kaplan-Meier Survival Analysis for Single Group

outcomeorganizer(): Outcome Organizer for Survival Analysis

outcomeorganizerClass: Enhanced Outcome Organizer for Survival Analysis

outlierdetection(): Advanced Outlier Detection

outlierdetectionClass: Advanced Outlier Detection with easystats

parallelplot(): Parallel Coordinates Plot

parallelplotClass: Parallel Coordinates Plot - Complete Implementation

pathology_diagnosis: Pathology Diagnosis Dataset

pediatric_growth: Pediatric Growth Assessment Dataset

powersurvival(): Power Analysis for Survival Studies

powersurvivalClass: Power Analysis for Survival Studies

ppv(): Positive Predictive Value

ppvClass: Positive Predictive Value Calculator

print(<sensSpecTable>): Print formatted HTML table for sensitivity/specificity results

prop_to_percent(): Convert proportion to percentage string

psychopdaroc(): ROC Analysis

psychopdarocClass: Comprehensive ROC Analysis with Advanced Features

raincloud(): Raincloud Plot

raincloudClass: Raincloud Plot for Distribution Visualization

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

reportcat(): Summary of Categorical Variables

reportcat2(): Summary of Categorical Variables

reportcat2Class: Summary of Categorical Variables

reportcatClass: Summary of Categorical Variables

retracted(): Find Retracted Papers from DOI

riverplot(): River Plots

riverplotClass: River Plots

safe_divide(): Safe division function

screeningcalculator(): Screening Test Calculator

screeningcalculatorClass: Screening Test Calculator

sequentialtests(): Sequential Testing Analysis

sequentialtestsClass: Sequential Testing Analysis

simonmakuch(): Simon-Makuch Time-Dependent Survival Analysis

simonmakuchClass: Simon-Makuch Time-Dependent Survival Analysis

singlearm(): Single Arm Survival

singlearmClass: Single Arm Survival

small_sample_tree: Small Sample Edge Case Dataset

stagemigration(): Advanced TNM Stage Migration Analysis

stagemigrationClass: Advanced TNM Stage Migration Analysis

statsplot2(): Automatic Plot Selection

statsplot2Class: Automatic Plot Selection Based on Variable Types

subgroupforest(): Subgroup Analysis Forest Plot

subgroupforestClass: Subgroup Analysis Forest Plot

summarydata(): Summary of Continuous Variables

summarydata2(): Summary of Continuous Variables

summarydata2Class: Enhanced Summary Statistics for Continuous and Date Variables

summarydataClass: Summary of Continuous Variables with Distribution Diagnostics

survival(): Survival Analysis

survivalClass: Comprehensive Survival Analysis

survivalcont(): Survival Analysis for Continuous Variable

survivalcontClass: Survival Analysis for Continuous Explanatory Variable

survivalpower(): Survival Analysis Power & Sample Size

survivalpowerClass: Survival Analysis Power & Sample Size

swimmer_unified_basic: Basic Swimmer Plot Example Data

swimmer_unified_comprehensive: Comprehensive Swimmer Plot Example Data

swimmer_unified_datetime: DateTime Swimmer Plot Example Data

swimmer_unified_events: Event Markers Swimmer Plot Example Data

swimmer_unified_oncology: Oncology Clinical Trial Swimmer Plot Data

swimmerplot(): Swimmer Plot

swimmerplotClass: Swimmer Plot

tableone(): Table One

tableone2(): Table One Draft 2

tableone2Class: Table One

tableoneClass: Table One

tidydensity(): Statistical Distribution Generator

tidydensityClass: Statistical Distribution Generator and Analyzer

tidyplots(): Comprehensive Tidy Plots

tidyplotsClass: Comprehensive Tidy Plots with Advanced Statistical Visualization

tidyplots_datasets tidyplots_medical tidyplots_education tidyplots_business tidyplots_environmental tidyplots_demo: Comprehensive Test Datasets for Tidyplots Function

timeinterval(): Comprehensive Time Interval Calculator

timeintervalClass: Comprehensive Time Interval Calculator for Survival Analysis

timeinterval_clinical_trial timeinterval_european_dates timeinterval_us_datetime timeinterval_epidemiological timeinterval_landmark timeinterval_mixed_formats timeinterval_datasets_summary timeinterval_test_scenarios: TimeInterval Test Datasets

timeroc(): Time-Dependent ROC Analysis

timerocClass: Enhanced Time-Dependent ROC Analysis for Clinical Research

timeroc_cancer_biomarker: Cancer Biomarker Time-Dependent ROC Test Dataset

timeroc_cardiovascular_risk: Cardiovascular Risk Prediction Test Dataset

timeroc_competing_risks: Competing Risks Analysis Test Dataset

timeroc_cancer_biomarker timeroc_cardiovascular_risk timeroc_multi_biomarker timeroc_landmark_biomarker timeroc_edge_cases timeroc_competing_risks: TimeROC Test Datasets

timeroc_datasets_summary: TimeROC Dataset Summary Information

timeroc_edge_cases: Edge Cases and Quality Testing Dataset

timeroc_landmark_biomarker: Landmark Biomarker Analysis Test Dataset

timeroc_multi_biomarker: Multi-Biomarker Comparison Test Dataset

timeroc_test_scenarios: TimeROC Test Scenarios Documentation

tinytable(): Modern Table Formatting

tinytableClass: Modern Table Formatting with TinyTable

tinytable_clinical_demographics: Clinical Research Demographics Test Dataset

tinytable_clinical_demographics tinytable_laboratory_results tinytable_multimodal_summary tinytable_timeseries_summary tinytable_edge_cases tinytable_small_sample: TinyTable Test Datasets

tinytable_datasets_summary: TinyTable Dataset Summary Information

tinytable_edge_cases: Edge Cases and Quality Testing Dataset

tinytable_laboratory_results: Laboratory Results Test Dataset

tinytable_multimodal_summary: Multi-Modal Data Summary Test Dataset

tinytable_small_sample: Small Sample Size Test Dataset

tinytable_test_scenarios: TinyTable Test Scenarios Documentation

tinytable_timeseries_summary: Time Series Summary Test Dataset

toolssummary(): Tools for data summary

toolssummaryClass: Tools for data summary with summarytools integration

toolssummary_clinical_demographics: Clinical Research Demographics with Treatment Groups

toolssummary_clinical_demographics toolssummary_laboratory_results toolssummary_mixed_datatypes toolssummary_timeseries_data toolssummary_edge_cases toolssummary_small_sample: Enhanced Tools for Data Summary Test Datasets

toolssummary_datasets_summary: Enhanced Tools for Data Summary Dataset Collection Summary

toolssummary_edge_cases: Edge Cases and Robustness Testing Dataset

toolssummary_laboratory_results: Laboratory Results with Longitudinal Structure

toolssummary_mixed_datatypes: Mixed Data Types with Complex Categorical Variables

toolssummary_small_sample: Small Sample Size Testing Dataset

toolssummary_test_scenarios: Enhanced Tools for Data Summary Test Scenarios Documentation

toolssummary_timeseries_data: Time Series Data for Longitudinal Analysis

toxicityprofile(): Treatment Toxicity Profile

toxicityprofileClass: Treatment Toxicity Profile

toxicityprofile_oncology_trial toxicityprofile_immunotherapy toxicityprofile_targeted_therapy toxicityprofile_dose_escalation toxicityprofile_pediatric toxicityprofile_small_sample: Enhanced Treatment Toxicity Profile Test Datasets

toxicityprofile_datasets_summary: Treatment Toxicity Profile Dataset Collection Summary

toxicityprofile_dose_escalation: Dose Escalation Study Safety Dataset

toxicityprofile_immunotherapy: Immunotherapy Safety Profile Dataset

toxicityprofile_oncology_trial: Oncology Clinical Trial Safety Dataset

toxicityprofile_pediatric: Pediatric Safety Study Dataset

toxicityprofile_small_sample: Small Sample Edge Cases Dataset

toxicityprofile_targeted_therapy: Targeted Therapy Safety Profile Dataset

toxicityprofile_test_scenarios: Treatment Toxicity Profile Test Scenarios Documentation

tree(): Medical Decision Tree

treeClass: Medical Decision Tree

cancer_biomarkers cardiovascular_risk pathology_diagnosis drug_response pediatric_growth small_sample_tree: Enhanced Medical Decision Tree Test Datasets

tree_datasets_summary: Tree Datasets Summary

tree_test_scenarios: Tree Test Scenarios Documentation

validateROCInputs(): Validate inputs for ROC analysis

vartree(): Variable Tree

vartreeClass: Variable Tree

venn(): Venn Diagram

vennClass: Venn Diagram

waterfall(): Treatment Response Analysis

waterfallClass: Treatment Response Analysis