Life123 - Open-Source Engine for Quantitative Reactomics (Dynamical Modeling in Systems Biology)

A PLATFORM for SYSTEMS BIOLOGY (Dynamical Modeling)

A Python library for simulations and visualization ("pip install life123") Software repository
In-Silico Experiments : Jupyter Notebooks utilizing that library can be viewed on the Experiments page
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Deeper-Dive Overview of Life123 Blog entry version of the above video

Life123: A PLATFORM for SYSTEMS BIOLOGY

A growing set of tools to wrestle the complications of numerical solutions to complex dynamical systems, such as cycles and webs of biochemical reactions, optionally with macro-molecules, spatial components and diffusion (plus, upcoming, membranes.)

ONLY 1/2 OF THE BATTLE, is to offer functionality to set up and simulate the system...

The OTHER 1/2 OF THE BATTLE is a battery of tools:

to tame numerical instabilities
to throttle up/down the computational effort
to visualize & analyze the results
to provide helpful diagnostics
to integrate high-performance computing
to provide an API that is simple, convenient & intuitive

A collaboration of software engineering, data science, numerical methods, biochemistry & biology, among other fields

Project's Overview and Vision. Project's History

Conferences

Talks invited to give about Life123:

Examples

From experiment macromolecules_1:

Release Beta 28.2

See a lot more examples from all the experiments. Version History