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Software Tools Using SBOL

  • Benchling - Design, analyze, and share sequence data in the cloud.
  • Clotho - Biological engineering tool set for development and management of biological systems 
  • Converter - Each part from the Registry of Standard Biological Parts (Collection of standardized genetic parts) is available in SBOL format. 
  • Device Editor - Graphical user interface for J5. J5 is a bioCAD tool that provides rule-based validation of genetic designs that are constructed using SLIC, Gibson, Golden-gate, or CPEC assembly methods. 
  • Electronic Datasheets - Human- and machine-readable datasheets for the standard biological parts being developed at the BIOFAB
  • Eugene - Biological programming language to constrain the composition of genetic parts 
  • GenBank Converter - Interconverts SBOL and Genbank format files.
  • Gene Designer - A DNA design tool.
  • GenoCAD - Design of synthetic DNA sequences based on grammatical models of genetic part
  • iBiosim - Analysis tool for design of genetic circuits and discovery of their connectivity from experimental data 
  • ICE - Repository for DNA sequences, microbial strains, and Arabidopsis seeds.
  • j5 - Automates the design of DNA assembly protocols.
  • MoSeC - Automates the derivation of DNA sequences from models.
  • Proto BioCompiler - Automated design of genetic regulatory networks from high-level programs.
  • SBOL Stack - A repository for SBOL documents. 
  • SBPkb - Knowledgebase of standard biological parts using all the data from the Registry of Standard Biological Parts at MIT. 
  • Teselagen - DNA design and assembly BioCAD/CAM platform
  • TinkerCell - Synthetic biology CAD tool offering drawing and quantitative simulation 
  • VectorEditor - Viewing, annotating and in silico cloning of sequences
  • Virtual Parts Repository - A repository of parts and their modular, composable models. 
To submit new tools to the list, contact the SBOL Editors at editors@sbolstandard.org.
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