of what you can do with Morpheus…

Ordinary differential equations
Reaction-diffusion systems
Cellular Potts models
Multi-scale models


Blog with tips and tricks

How to create a minimal multi-scale model


Get to know the GUI and try out some examples.



Talks, workshops and courses


OpenMultiMed training school
Thu, Feb 22, 2018
Multiscale Biology Summer School
Wed, Sep 13, 2017


Papers on Morpheus

Morpheus is a modeling environment for the simulation and integration of cell-based models with ordinary differential equations and reaction-diffusion systems. It allows rapid development of multiscale models in biological terms and mathematical expressions rather than programming code. Its graphical user interface supports the entire workflow from model construction and simulation to visualization, archiving and batch processing.
Bioinformatics, 2014


Recent papers citing Morpheus


. A cell-based mechanical model of coronary artery tunica media.. Journal of the Royal Society, Interface, 2017.

DOI PubMed

. A dynamically diluted alignment model reveals the impact of cell turnover on the plasticity of tissue polarity patterns.. Journal of the Royal Society, Interface, 2017.

DOI PubMed

. An individual-based model for collective cancer cell migration explains speed dynamics and phenotype variability in response to growth factors.. NPJ systems biology and applications, 2017.

DOI PubMed

. Comparing individual-based approaches to modelling the self-organization of multicellular tissues.. PLoS computational biology, 2017.

DOI PubMed


Excitable tissue

Constructing a model with intercellular transport between discrete cells, without using Fields

External Project

An example of linking directly to an external project website using external_link.


Get the app or build from source

Download the prebuilt app

Operating system Package Notes
MS Windows MS Windows
  • Windows XP or higher
  • Requires Gnuplot
Linux Linux
  • Install with debian package manager
  • Or use alien to convert to non-debian packages

Or build from source

git clone https://gitlab.com/morpheus.lab/morpheus.git morpheus
cd morpheus
mkdir build
cd build
cmake ..
make && sudo make install

See the README.md at the gitlab repository for dependencies and build instructions.


Docs, help and contact

Getting help

Source Type of support
Morpheus user forum
  • Modeling questions
  • User interface issues
Twitter: @morpheus_lab
  • Urgent modeling issues
  • Announcements
Issue tracker
  • Bug reports
  • Feature requests
  • Support for (plugin) developers
  • User manual
  • Developers guide

In-app docs

Morpheus has documentation right within the graphical user interface:

  • plugin docs: describes function and attributes of plugin
  • supports: $\LaTeX$ math and <XML/> code usage examples
  • context-sensitive: shows the docs for the currently selected plugin
  • browsing: browse through all docs
  • dockable: drag panel to make into a window