OverviewOfProject

Overview

Current Developer: Adam M. Smith

Previous Team Members: Wen Xu, Yao Sun

Project Advisor: Dr. G. Elisabeta Marai

Systems Biology Collaborator: Dr. James R. Faeder

Code Location: All versions now hosted on googlecode. See the 'tags' directory for previous versions.

Project Website: http://www.rulebender.org

Purpose

The purpose of RuleBender is to assist in the creation, debugging, simulation, and analysis of rule-based biochemical models. Models are created via a text editor with support for syntax highlighting and error annotation. Linked interactive visualizations display global views of the model under development and provide data on demand for further exploration. Simulation execution is integrated into the tool and results analysis is assisted via interactive charts and visualizations of the molecules in a generated network.

Motivation

The original workflows for the modelers included editing models with general text editing tools, executing simulations from the command line, and using additional analysis and visualization tools to view the results. RuleBender alleviates these difficulties with visualizations for debugging and integrated tool features for the workflow tasks.