Matthias König, https://livermetabolism.com
The introductory lecture is available here
This course provides resources for a simple introduction to PK/PD models using a caffeine physiological-based whole body model.
The course contains the following information:
./notebooks: tutorial notebooks ./presentation: introductory presentation ./literature: relevant literature
We need an environment with the libraries listed in requirements.txt These are standard python libraries and libroadrunner for simulation of SBML models.
The easiest way to use this tutorial is to use conda/bioconda.
After installation add the additional library libroadrunner via:
pip install libroadrunner
One possible solution is to setup a virtual environment with all system dependencies.
Create a virtual environment via:
mkvirtualenv pkpd-course
Install requirements:
(pkpd-course) pip install -r requirements.txt --upgrade (pkpd-course) pip install ipykernel jupyterlab
Register the virtualenv as a kernel:
python -m ipykernel install --user --name pkpd-course
Matthias König is supported by the Federal Ministry of Education and Research (BMBF, Germany) within the research network Systems Medicine of the Liver (LiSyM, grant number 031L0054), by the German Research Foundation (DFG) within the Research Unit Programme FOR 5151 "QuaLiPerF (Quantifying Liver Perfusion-Function Relationship in Complex Resection - A Systems Medicine Approach)" by grant number 436883643 and by grant no. 465194077 (Priority Programme SPP 2311, Subproject SimLivA).
- Source Code: LGPLv3
- Documentation: CC BY-SA 4.0
© 2018-2022 Matthias König