CAVEPM Workshop 2019
The goal of this interactive workshop was to provide participants with an overview of the epidemiological and statistical methods necessary for carrying out a systematic review and meta-analysis of diagnostic accuracy. The workshop format included lectures followed by tutorials for a hands-on experience with the following software:
- R (from https://www.r-project.org/)
- RStudio (from https://www.rstudio.com/)
- JAGS (from https://sourceforge.net/projects/mcmc-jags/files/)
Session 1: Systematic Reviews of Diagnostic Accuracy
Session 2: Bivariate Meta-analyses
- Lecture
- Bivariate model (R Script, html output)
- HSROC model (R Script, html output)
- Examining heterogeneity (R Script, High Prev Data, Low Prev Data)
Session 3: Latent class meta-Analysis
- Single study latent class analysis
(Lecture, R Script, html output) - Latent class meta-analysis
(R Script, html output)
Session 4: Participant presentations
- Template for participant presentations
- Binax data set (see article by Sinclair et al. below)
- Lymph node TB dataset (see article by Kohli et al. below)
References
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Kohli M, Schiller I, Dendukuri N, Dheda K, Denkinger CM, Schumacher SG, Steingart KR. Xpert(®) MTB/RIF assay for extrapulmonary tuberculosis and rifampicin resistance. Cochrane Database Syst Rev. 2018 Aug 27;8:CD012768
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Sinclair A, Xie X, Teltscher M, Dendukuri N. Systematic review and meta-analysis of a urine-based pneumococcal antigen test for diagnosis of community-acquired pneumonia caused by Streptococcus pneumoniae. J Clin Microbiol. 2013 Jul;51(7):2303-10.
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Xie X, Sinclair A, Dendukuri N. Evaluating the accuracy and economic value of a new test in the absence of a perfect reference test. Res Synth Methods. 2017 Sep;8(3):321-332.
Blog
How to guide on a R Shiny app developed to perform Bayesian inference for diagnostic meta-analysis
Authors: Ian Schiller, Nandini Dendukuri
Read moreBayesian inference for the bivariate latent class model for diagnostic meta-analysis
Authors: Ian Schiller, Nandini Dendukuri
Read moreBayesian inference for HSROC diagnostic meta-analysis model
We pursue our series of blog articles illustrating rjags programs for diagnostic meta-analysis with an article describing how to carry out Bayesian inference for the...
Read moreBayesian inference for the Bivariate model for diagnostic meta-analysis
Contents OVERVIEW MOTIVATING EXAMPLE AND DATA THE MODEL INITIAL VALUES COMPILING AND RUNNING THE MODEL MONITORING CONVERGENCE SUMMARY STATISTICS SROC plot SCRIPT...
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Want to use a Bayesian approach to plan your study for comparing proportions? The R package SampleSizeProportions implements sample size calculations based on...
Read moreLearning rjags using simple statistical models
Here are some examples of fitting simple statistical models in rjags. They are useful for beginners learning Bayesian inference using the rjags library. Notice in...
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