Modeling

Cello

A tool for Genetic circuit design automation

iBioSim

iBioSim has been developed for the modeling, analysis, and design of genetic circuits.

j5

DNA assembly design automation

Parts & Pools

A graphical, drag and drop design of synthetic gene circuit with Standard Biological Parts.

Proto BioCompiler

Proto BioCompiler generates optimized genetic regulatory network designs from specifications written in a high-level programming language, producing both SBOL specifications, visualization, and ODE models.

Tellurium

A Python environment based on spyder2 IDE, designed for systems and synthetic biology simulations.

TinkerCell

A widely used open source network design and simulation application tool for synthetic biology

Virtual Parts Repository

A repository of modular models of biological components.