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Tag: R

Personal blog / Tutorials

Exploring the Capabilities of ChatGPT: A Step-by-Step Guide to Creating a Pharmacokinetic Analysis Shiny App

With the introduction of ChatGPT I was interested to learn how ChatGPT in pharmacometrics might be applied and how this will impact my code writing tasks, especially for doing pharmacokinetic …

Tutorials

Applying MAP Bayes estimation for therapeutic drug monitoring (TDM) in R with mrgsolve

The development of population PK (and PD) models enable the use of individual Bayesian dose optimization. One could use the included covariates to derive the dose of an individual but …

Tutorials

Simulating the equi-dosing regimen region in R using mrgsolve – a bottom-up approach

Acknowledgments The idea for this post was based upon the research by Dr. Lloyd Bridge, presented at the British Pharmacological Society meeting December 2018. and published in October 2020 in …

Tutorials

Plotting PK/PD hysteresis with variability in R using ggplot

The identification of hysteresis in a PK/PD relationship provides information on a possible delay between the plasma concentration and the effect. The identification of hysteresis can further assist us in …

Tutorials

Simulating your pharmacometric model with parameter uncertainty in R

How certain are we about the parameters that we estimate in our population model? Is that volume of distribution that NONMEM gave us really 10 liters with a clearance of …

Tutorials

From publication to simulation: extracting information from literature models – Amikacin case study

When you are starting to learn about the basics of modeling & simulation, or when you are planning to start a new study with an already existing compound, it could …

Tutorials

Creating a simple pharmacometric Shiny application with mrgsolve in R – Part 2

Shiny applications are a great way to show your complicated models in an interactive way. In recent years, many different examples have been published online showcasing a wide range of …

Tutorials

Creating a simple pharmacometric Shiny application with mrgsolve in R – Part 1

This two part series will show you how to create a simple pharmacometric Shiny application using the mrgsolve package in R. I think that Shiny applications are the most promising way …

VPC Tutorial

A step-by-step guide to prediction corrected visual predictive checks (VPC) of NONMEM models

Introduction Back in 2011, a very nice paper introducing the prediction corrected VPC was published by Bergstrand et al, titled: “Prediction-Corrected Visual Predictive Checks for Diagnosing Nonlinear Mixed-Effects Models” In …

Tutorials

Visualizing the NONMEM model fit in R using mrgsolve – with code

It is difficult to grasp what non-linear mixed effects modelling software is actually doing when you start a run. Furthermore, the iteration prints that you see in the console (when …

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Recent posts:

  • Exploring the Capabilities of ChatGPT: A Step-by-Step Guide to Creating a Pharmacokinetic Analysis Shiny App
  • Abbreviations and Terminology Used in Population Pharmacokinetics/Pharmacodynamic Models and in Pharmacometrics
  • Publishing the covariance matrix of population models. Why not?
  • Parallel fast-slow absorption – Modelling the Tortoise AND the Hare
  • Applying MAP Bayes estimation for therapeutic drug monitoring (TDM) in R with mrgsolve
  • Simulating the equi-dosing regimen region in R using mrgsolve – a bottom-up approach
  • How (not) to report pharmacokinetic data
  • Inter-individual and/or inter-occasion variability: what can we quantify in our models and what is the impact on simulations
  • Calculating the power of covariates in population non-linear mixed effects models: the Monte Carlo Mapped Power approach
  • Flawed study design of parent-metabolite pharmacokinetic studies – the prove is in the pee
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