Software

These software tools were developed by, or in collabaration with, the Tyson Lab.

JigCell

JigCell - a joint effort by members of the Departments of Biology and Computer Science at Virginia Tech. The goal is to advance the state of the art for modeling in Systems Biology.

PET

PET - The parameter estimation toolkit provides a graphical user interface for discovering rate constants of molecular network models, that fit experimental data.

Oscill8

Oscill8 - A suite of tools for analyzing large systems of ODEs, particularly with respect to understanding how the high dimensional parameter space controls the dynamics of the system. Some key features are: bifurcation diagrams, bifurcation searching, and parameter sweeping.

Labnotes

Labnotes - A program that allows user to extract numerical values of data from graphs in a pdf file. Need Adobe Pdf Reader to work.