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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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.
SBOL <-> Genbank Converter
Loss-less interconversion of SBOL v1.1 and GenBank
SBOL Validator/Converter
A simple, easy-to-use software tool that allows for conversion between SBOL/GenBank/FASTA files using the Synthetic Biology Open Language (SBOL) 2.0 data model.
SBOLDesigner
A simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using SBOL
SBOLme
An open-access repository of SBOL 2-compliant biochemical parts for a wide range of metabolic engineering applications.
ShortBOL
A shorthand language for SBOL
SynBioHub
A registry for storing and sharing genetic circuit designs using the SBOL2 standard
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.