Mailing List: http://groups.google.com/group/biographer-gsocstud
biographer is an open-source project for in-browser visualization of biological networks. It aims at providing a standard library which can be used as plugin in the vast variety of bioinformatics tools and platforms which need network visualization. Focus lies on the SBGN standard compliant visualization of reaction networks including an optimized automated layout which emphasizes on network function.
biographer is developed at the Theoretical Biophysics group which pursues scientific research in the field of Systems Biology by the means of mathematical and computational models. We aim to develop new techniques, software, incorporate new and well established knowledge to get a better understanding of the fundamentals of life. At GSoC 2012 we are seeking skilled students for our projects which like to contribute to open-source in a research environment.
- Boolean Network Simulation The goal of this project is to extend biographer to support the simulation and analysis of boolean networks. The project involves writing modules for importing models in booleannet format and also automatically generating models for a reaction graph. An interface needs to be then provided for simulating the boolean network step by step using Biographer's existing UI. Simple tools that calculate the steady state, trajectory length and cyclic attractors will also be written