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Fitting gastric emptying curves

By dieter.menne@menne-biomed.de, Menne Biomed Consulting Tübingen, D-72074 Tübingen

A package and a Shiny web application to create simulated gastric emptying data, and to analyze gastric emptying from clinical studies using a population fit with R and package nlme. Stan-based (http://mc-stan.org/) Bayesian fits that can handle critical cases are included and will be extended in future.

Part of the work has been supported by section GI MRT, Klinik für Gastroenterologie und Hepatologie, Universitätsspital Zürich; thanks to Werner Schwizer and Andreas Steingötter for their contributions.

Download

The package is available from github, source, documentation. To install, use:

devtools::install_github("dmenne/gastempt")

Compilation of the Stan models needs several minutes.

Shiny online interface

The web interface can be installed on your computer, or run as web app.

Two models are implemented in the web interface

Methods with variants

Data entry:

Example

Program with simulated data (needs about 40 seconds till plot shows):

library(gastempt)
dd = simulate_gastempt(n_records = 6, seed = 471)
d = dd$data
ret = stan_gastempt(d)
print(ret$coef)
print(ret$plot)

Coming:

Screenshot

Screenshot