napari-plugin to analyse collective signalling events

↗️ Influence graph analysis, consistency check, diagnosis, repair and prediction

CeCe is a platform for advanced simulation of cells and cell signalling in 2D. It includes a physical engine, stochastic chemical reactions, cell-cell bonding, diffusion, hydrodynamics, and a growth model.

Influence graph analysis, consistency check, diagnosis, repair and prediction

Convolutional Neural Network for Dynamics EXploration (CODEX) is a method for mining time-series dataset by leveraging CNN features.

Design experiments to differentiate interaction graph models

PAR2 Activation and calcium signaling Reaction Model in PySB

Maximum Entropy (MaxEnt) parameter inference in biological networks.

Python pipeline to build empirical kinase networks and identify kinase signalling communities from quantitative phosphoproteomics data.

An activation model for the full TAM receptor family.

Source code for "Coupling dynamics of 2D Notch-Delta signalling", by Francisco Berkemeier and Karen M. Page