ppsim: a software package for efficiently simulating and visualizing population protocols

DOI10.1007/978-3-030-85633-5_16zbMath1489.92003arXiv2105.04702OpenAlexW3202348514MaRDI QIDQ2142123

Eric E. Severson, David Doty

Publication date: 25 May 2022

Full work available at URL: https://arxiv.org/abs/2105.04702

zbMATH Keywords

chemical reaction networkpopulation protocol

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Software, source code, etc. for problems pertaining to biology (92-04) Systems biology, networks (92C42)

Uses Software

• StochKit
• StochKit2
• GitHub
• ppsim
• GillesPy2

Cites Work

• Unnamed Item
• Unnamed Item
• Unnamed Item
• Unnamed Item
• A simple population protocol for fast robust approximate majority
• Reversible-equivalent-monomolecular tau: a leaping method for ``small number and stiff stochastic chemical systems
• Approximation of probabilistic reachability for chemical reaction networks using the linear noise approximation
• Robust detection in leak-prone population protocols
• Computation in networks of passively mobile finite-state sensors
• Polylogarithmic-Time Leader Election in Population Protocols
• Leader Election Requires Logarithmic Time in Population Protocols
• Optimal time and space leader election in population protocols
• Universal protocols for information dissemination using emergent signals
• Simple and Efficient Leader Election
• Brief Announcement
• Stable leader election in population protocols requires linear time
• Approximate majority analyses using tri-molecular chemical reaction networks

This page was built for publication: ppsim: a software package for efficiently simulating and visualizing population protocols