Diagnostic Test Accuracy Meta-Analysis using Template Model Builder

Documentation for package ‘dtametaTMB’ version 0.1.4

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dtametaTMB: Diagnostic Test Accuracy Meta-Analysis using Template Model Builder

-- A --

anaemia	Anaemia Synthetic Dataset
anova.dtametaTMB	Likelihood Ratio Tests for Diagnostic Test Accuracy Models
anova.Reitsma	Likelihood Ratio Tests for Diagnostic Test Accuracy Models
anova.RutterGatsonis	Likelihood Ratio Tests for Diagnostic Test Accuracy Models
anticcp	Anticcp Dataset
as_revman	Export Model Results for RevMan
as_revman.dtametaTMB	Export Model Results for RevMan
as_revman.Reitsma	Export Model Results for RevMan
as_revman.ReitsmaLCA	Export Model Results for RevMan
as_revman.ReitsmaSubgroup	Export Model Results for RevMan
as_revman.ReitsmaSubgroupLCA	Export Model Results for RevMan
as_revman.ReitsmaSubgroupTMB	Export Model Results for RevMan
as_revman.ReitsmaTMB	Export Model Results for RevMan
as_revman.RutterGatsonis	Export Model Results for RevMan
as_revman.RutterGatsonisLCA	Export Model Results for RevMan
as_revman.RutterGatsonisSubgroup	Export Model Results for RevMan
as_revman.RutterGatsonisSubgroupLCA	Export Model Results for RevMan

-- C --

coef.dtametaTMB	Extract Model Coefficients
coef.DTAmodel	Extract Model Coefficients
coef.Reitsma	Extract Model Coefficients
coef.ReitsmaLCA	Extract Model Coefficients
coef.ReitsmaSubgroup	Extract Model Coefficients
coef.ReitsmaSubgroupLCA	Extract Model Coefficients
coef.ReitsmaSubgroupTMB	Extract Model Coefficients
coef.ReitsmaTMB	Extract Model Coefficients

-- D --

dementia	Dementia Dataset
diabetes	Diabetes Dataset
dtametaTMB	dtametaTMB: Diagnostic Test Accuracy Meta-Analysis using Template Model Builder

-- F --

FENO	FENO Dataset
fitHoyer	Fit Threshold-Based Bivariate Time-to-Event Model (Hoyer)
fitHoyerAFT	Fit Threshold-Based Bivariate Time-to-Event Model (HoyerAFT)
fitReitsma	Fit the Reitsma Model
fitReitsmaLCA	Fit the Reitsma LCA Model
fitReitsmaSubgroup	Fit the Reitsma Subgroup Model
fitReitsmaSubgroupLCA	Fit the Reitsma Subgroup LCA Model
fitReitsmaSubgroupTMB	Fit the Reitsma Subgroup TMB Model
fitReitsmaTMB	Fit the Reitsma TMB Model
fitRutterGatsonis	Fit the Rutter and Gatsonis (HSROC) Model
fitRutterGatsonisLCA	Fit the Rutter and Gatsonis LCA Model
fitRutterGatsonisReg	Fit the Rutter and Gatsonis Regression Model
fitRutterGatsonisSubgroup	Fit the Rutter and Gatsonis Subgroup Model
fitRutterGatsonisSubgroupLCA	Fit the Rutter and Gatsonis Subgroup LCA Model
forest	Coupled Forest Plot
forest.HoyerAFT	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.Reitsma	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.ReitsmaLCA	Coupled Forest Plot for Latent Class Diagnostic Test Accuracy Meta-Analysis
forest.ReitsmaSubgroup	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.ReitsmaSubgroupLCA	Coupled Forest Plot for Latent Class Diagnostic Test Accuracy Meta-Analysis
forest.ReitsmaSubgroupTMB	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.RutterGatsonis	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.RutterGatsonisLCA	Coupled Forest Plot for Latent Class Diagnostic Test Accuracy Meta-Analysis
forest.RutterGatsonisSubgroup	Coupled Forest Plot for Diagnostic Test Accuracy Meta-Analysis
forest.RutterGatsonisSubgroupLCA	Coupled Forest Plot for Latent Class Diagnostic Test Accuracy Meta-Analysis

-- I --

initHoyerAFT

Compute Initial Parameter Values for HoyerAFT Models

-- L --

logLik.dtametaTMB	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.DTAmodel	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.HoyerAFT	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.Reitsma	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.ReitsmaLCA	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.ReitsmaSubgroup	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.ReitsmaSubgroupLCA	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.ReitsmaSubgroupTMB	Extract Log-Likelihood from Diagnostic Test Accuracy Models
logLik.ReitsmaTMB	Extract Log-Likelihood from Diagnostic Test Accuracy Models

-- P --

pap	Pap Dataset
plot.HoyerAFT	Plot Results from a HoyerAFT Model
plot.Reitsma	Plot Results from a Reitsma Model
plot.ReitsmaLCA	Plot Results from a Reitsma LCA Model
plot.ReitsmaSubgroup	Plot Results from a Reitsma Subgroup Model
plot.ReitsmaSubgroupLCA	Plot Results from a Reitsma Subgroup LCA Model
plot.ReitsmaSubgroupTMB	Plot Results from a Reitsma Subgroup TMB Model
plot.ReitsmaTMB	Plot Results from a ReitsmaTMB Model
plot.RutterGatsonis	Plot Results from a Rutter and Gatsonis Model
plot.RutterGatsonisLCA	Plot Results from a Rutter and Gatsonis LCA Model
plot.RutterGatsonisSubgroup	Plot Results from a Rutter and Gatsonis Subgroup Model
plot.RutterGatsonisSubgroupLCA	Plot Results from a Rutter and Gatsonis Subgroup LCA Model
print.HoyerAFT	Print Method for HoyerAFT Objects
print.Reitsma	Print Method for Reitsma Objects
print.ReitsmaLCA	Print Method for ReitsmaLCA Objects
print.ReitsmaSubgroup	Print Method for ReitsmaSubgroup Objects
print.ReitsmaSubgroupLCA	Print Method for ReitsmaSubgroupLCA Objects
print.ReitsmaSubgroupTMB	Print Method for ReitsmaSubgroupTMB Objects
print.ReitsmaTMB	Print Method for ReitsmaTMB Objects
print.RutterGatsonis	Print Method for RutterGatsonis Objects
print.RutterGatsonisLCA	Print Method for RutterGatsonisLCA Objects
print.RutterGatsonisReg	Print Method for RutterGatsonisReg Objects
print.RutterGatsonisSubgroup	Print Method for RutterGatsonisSubgroup Objects
print.RutterGatsonisSubgroupLCA	Print Method for RutterGatsonisSubgroupLCA Objects
print.summary.DTAmodel	Print a Diagnostic Test Accuracy Model Summary
print.summary.HoyerAFT	Print a Diagnostic Test Accuracy Model Summary
print.summary.Reitsma	Print a Diagnostic Test Accuracy Model Summary
print.summary.ReitsmaLCA	Print a Diagnostic Test Accuracy Model Summary
print.summary.ReitsmaSubgroup	Print a Diagnostic Test Accuracy Model Summary
print.summary.ReitsmaSubgroupLCA	Print a Diagnostic Test Accuracy Model Summary
print.summary.ReitsmaSubgroupTMB	Print a Diagnostic Test Accuracy Model Summary
print.summary.ReitsmaTMB	Print a Diagnostic Test Accuracy Model Summary
print.summary.RutterGatsonis	Print a Diagnostic Test Accuracy Model Summary
print.summary.RutterGatsonisLCA	Print a Diagnostic Test Accuracy Model Summary
print.summary.RutterGatsonisReg	Print a Diagnostic Test Accuracy Model Summary
print.summary.RutterGatsonisSubgroup	Print a Diagnostic Test Accuracy Model Summary
print.summary.RutterGatsonisSubgroupLCA	Print a Diagnostic Test Accuracy Model Summary

-- R --

restructure_data	Construct Interval Data for Threshold-Based Bivariate Time-to-Event Models
RF	RF Dataset

-- S --

schuetz	Schuetz Dataset
summary.HoyerAFT	Summary Method for HoyerAFT Objects
summary.Reitsma	Summary Method for Reitsma Objects
summary.ReitsmaLCA	Summary Method for ReitsmaLCA Objects
summary.ReitsmaSubgroup	Summary Method for ReitsmaSubgroup Objects
summary.ReitsmaSubgroupLCA	Summary Method for ReitsmaSubgroupLCA Objects
summary.ReitsmaSubgroupTMB	Summary Method for ReitsmaSubgroupTMB Objects
summary.ReitsmaTMB	Summary Method for ReitsmaTMB Objects
summary.RutterGatsonis	Summary Method for RutterGatsonis Objects
summary.RutterGatsonisLCA	Summary Method for RutterGatsonisLCA Objects
summary.RutterGatsonisReg	Summary Method for RutterGatsonisReg Objects
summary.RutterGatsonisSubgroup	Summary Method for RutterGatsonisSubgroup Objects
summary.RutterGatsonisSubgroupLCA	Summary Method for RutterGatsonisSubgroupLCA Objects

-- T --

tub	Tub Dataset

-- V --

vcov.dtametaTMB	Extract Variance-Covariance Matrix
vcov.DTAmodel	Extract Variance-Covariance Matrix
vcov.Reitsma	Extract Variance-Covariance Matrix
vcov.ReitsmaLCA	Extract Variance-Covariance Matrix
vcov.ReitsmaSubgroup	Extract Variance-Covariance Matrix
vcov.ReitsmaSubgroupLCA	Extract Variance-Covariance Matrix