PhysiPKPD

This repository contains the code for PhysiPKPD, a module template for modeling drug treatments in PhysiCell.

Running instructions

Run the following commands from the PhysiCell root directory (assuming you have this repository as a subfolder within that directory)

make clean
make reset
make data-cleanup
make template

cp PhysiPKPD/custom_modules/custom.* custom_modules/
cp PhysiPKPD/main.cpp ./
cp PhysiPKPD/config/mymodel.xml config/
cp PhysiPKPD/Makefile ./ # this will overwrite your Makefile and any custom additions you have made!
make
project.exe ./config/mymodel.xml

If on Mac, the last command will instead read

./project ./config/mymodel.xml

Data visualization

Run the following commands from the directory in which you ran the project to create a GIF, movie, and/or data plots.

make gif
make movie
make data-plots