cotest: Co-Testing Analysis

In sbalci/ClinicoPathJamoviModule: Analysis for Clinicopathological Research

Co-Testing Analysis

Description

Function for analyzing combined results of two concurrent diagnostic tests. Calculates post-test probabilities based on various scenarios (either test positive, both positive, both negative).

Usage

cotest(
  test1_sens = 0.8,
  test1_spec = 0.9,
  test2_sens = 0.75,
  test2_spec = 0.95,
  indep = TRUE,
  cond_dep_pos = 0.05,
  cond_dep_neg = 0.05,
  prevalence = 0.1,
  fnote = FALSE,
  fagan = FALSE
)

Arguments

test1_sens	Sensitivity (true positive rate) of Test 1.
test1_spec	Specificity (true negative rate) of Test 1.
test2_sens	Sensitivity (true positive rate) of Test 2.
test2_spec	Specificity (true negative rate) of Test 2.
indep	Assume tests are conditionally independent (default is true).
cond_dep_pos	Conditional dependence between tests for subjects with disease. Value between 0 (independence) and 1 (complete dependence).
cond_dep_neg	Conditional dependence between tests for subjects without disease. Value between 0 (independence) and 1 (complete dependence).
prevalence	Prior probability (disease prevalence in the population). Requires a value between 0.001 and 0.999.
fnote	.
fagan	.

Value

A results object containing:

results$testParamsTable					a table
results$cotestResultsTable					a table
results$dependenceInfo					a html
results$dependenceExplanation					a html
results$explanation					a html
results$plot1					an image

Tables can be converted to data frames with asDF or as.data.frame. For example:

results$testParamsTable$asDF

as.data.frame(results$testParamsTable)

Examples

# example will be added

sbalci/ClinicoPathJamoviModule documentation built on June 13, 2025, 9:34 a.m.