BoolSi: a tool for distributed simulations and analysis of Boolean networks
Abstract
We present BoolSi, an open-source cross-platform command line tool for distributed simulations of deterministic Boolean networks with synchronous update. It uses MPI standard to support execution on computational clusters, as well as parallel processing on a single computer. BoolSi can be used to model the behavior of complex dynamic networks, such as gene regulatory networks. In particular, it allows for identification and statistical analysis of network attractors. We perform a case study of the activity of a cambium cell to demonstrate the capabilities of the tool.
Cite
@article{arxiv.1910.03736,
title = {BoolSi: a tool for distributed simulations and analysis of Boolean networks},
author = {Vladyslav Oles and Anton Kukushkin},
journal= {arXiv preprint arXiv:1910.03736},
year = {2019}
}
Comments
Added asynchronous BNs to the introduction, added figure showing an attractor, updated figure node correlations, explicitly mentioned if a figure is BoolSi output, stated correlations of CK and TDIF on proliferation in case study