PhysiBoSS-Models: A database for multiscale models

TL;DR

PhysiBoSS-Models is a curated database that facilitates sharing, reuse, and benchmarking of multiscale biological models built with the PhysiBoSS platform, promoting collaborative research.

Contribution

It introduces a standardized, accessible repository for PhysiBoSS models with a Python API, enhancing model sharing and validation in biological research.

Findings

Enables easy download and simulation of models

Supports model validation and benchmarking

Promotes collaborative research in systems biology

Abstract

PhysiBoSS is an open-source platform that integrates agent-based modeling of cell populations with intracellular stochastic Boolean networks, enabling multiscale simulations of complex biological behaviors. To promote model sharing and versioning, we present the PhysiBoSS-Models database: a curated repository for multiscale models built with PhysiBoSS. By providing a simple Python API, PhysiBoSS-Models provides an easy way to download and simulate preexisting models through tools such as PhysiCell Studio. By providing standardized access to validated models, PhysiBoSS-Models facilitates reuse, validation, and benchmarking, supporting research in biology.