Applications

If you are a synthetic biologist, you may not be aware that there are already many software tools available that support different aspects of the synthetic biology workflow, such as optimizing DNA assembly or simulating gene networks. Each of the software tools listed here supports exchange of genetic designs in the SBOL file format (SBOL core) or supports display of genetic designs using standard SBOL Visual glyphs.

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BOOST

A platform of tools to design DNA sequences for manufacturing

Cello

A tool for Genetic circuit design automation

Device Editor

Visual biocad canvas for specifying combinatorial DNA constructs for fabrication

DNAplotlib

DNAplotlib enables highly customizable visualization of individual genetic constructs and libraries of design variants. It can be thought of in many ways as matplotlib for genetic diagrams.

Eugene

A textual specification language for the rule-based design of synthetic biological systems, devices, parts, and DNA sequences.

Finch

Rule-based generation of constructs

GeneGenie

GeneGenie supports the design and self-assembly of synthetic genes and constructs.

GeneTech

A tool which allows a user to generate genetic logic circuits only by specifying the logical function desired to be achieved in a living cell.

GenoCAD

A rule-based DNA design tool.

Graphviz

a package of open-source tools initiated by AT&T Labs Research for drawing graphs specified in DOT language scripts.