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    187 repositories

    • NeptuneGUI_2026

      Public
      GUI code for Neptune_2026
      Vue
      •1•0•0•0•Updated Feb 16, 2026Feb 16, 2026

    • knox

      Public
      Full stack application for creating, combining, and storing combinatorial genetic design spaces.
      graph-algorithmssynthetic-biologycombinatorial-algorithmsgenetic-design
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •12•13•9•5•Updated Feb 13, 2026Feb 13, 2026

    • Microfluidics-Benchmarks

      Public
      Consolidated Repo of Test Cases and Benchmarks
      Mint
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•2•Updated Feb 10, 2026Feb 10, 2026

    • pyparchmint

      Public
      pyparchmint is the defacto object library for describing microfluidic device architectures. It contains the base datastructures for provisioning physical layout…
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•3•2•6•Updated Feb 10, 2026Feb 10, 2026

    • pyLFR

      Public
      Python
      •3•3•12•3•Updated Feb 10, 2026Feb 10, 2026

    • pyMINT

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•4•3•Updated Feb 10, 2026Feb 10, 2026

    • DAFD

      Public
      Python
      •7•17•0•14•Updated Feb 3, 2026Feb 3, 2026

    • knoxAI

      Public
      Flask API for graph-based deep learning for Knox
      graph-algorithmssynthetic-biologyregression-algorithmscombinatorial-algorithmsranking-algorithms
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•1•0•0•Updated Feb 2, 2026Feb 2, 2026

    • 3DuF

      Public
      Interactive microfluidic design editor
      microfluidicsfluigi
      JavaScript
      •
      BSD 2-Clause "Simplified" License
      •71•81•57•34•Updated Nov 22, 2025Nov 22, 2025

    • pyFluigi

      Public
      C++
      •5•0•1•1•Updated Nov 13, 2025Nov 13, 2025

    • Oriole

      Public
      Verilog
      •2•0•0•0•Updated Mar 29, 2025Mar 29, 2025

    • Vespa-Algorithm

      Public
      Python
      •1•0•0•0•Updated Oct 7, 2024Oct 7, 2024

    • Cello-v2-1-Core

      Public
      Streamlined Cello Algorithm. Feed it Verilog and UCF from CIDARLAB/CELLO-UCF, and run celloAlgo.py in terminal to make genetic circuit designs locally on your m…
      Python
      •
      Apache License 2.0
      •9•19•0•0•Updated Sep 16, 2024Sep 16, 2024

    • constellation-js

      Public
      Library for combinatorially specifying, constraining, and exploring genetic design spaces.
      JavaScript
      •
      MIT License
      •8•1•0•1•Updated Aug 26, 2024Aug 26, 2024

    • goldbar-generator

      Public
      Tool for GOLDBAR Generation using Rule Templates
      synthetic-biology
      Python
      •0•1•0•0•Updated Aug 26, 2024Aug 26, 2024

    • dafd-website

      Public
      Python
      •1•4•0•9•Updated Aug 6, 2024Aug 6, 2024

    • pigeon

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•3•6•5•Updated Mar 23, 2024Mar 23, 2024

    • mint-parchmint-scripts

      Public
      Python
      •0•0•0•0•Updated Nov 8, 2023Nov 8, 2023

    • UCFormatter

      Public
      modify and visualize UCF files containing genetic part specifications
      Python
      •
      MIT License
      •1•2•0•0•Updated Jun 11, 2023Jun 11, 2023

    • genetic-circuit-partitioning-new

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated May 28, 2023May 28, 2023

    • pycello-v2

      Public
      Python classes for Cello v2 input and output formats, namely the netlist and the UCF.
      Python
      •1•0•0•1•Updated May 22, 2023May 22, 2023

    • drop2image

      Public
      HTML
      •0•0•0•0•Updated May 11, 2023May 11, 2023

    • Peripheral-Manager

      Public
      Talk to USB devices from the browser
      httpflaskmiddlewarehardwaresocket-iobridge
      Python
      •
      BSD 2-Clause "Simplified" License
      •2•3•1•2•Updated May 1, 2023May 1, 2023

    • DAFD_Metrics

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 5, 2023Mar 5, 2023

    • Neptune

      Public
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •6•7•16•1•Updated Feb 19, 2023Feb 19, 2023

    • neural-optimizer

      Public
      Python
      •2•3•0•8•Updated Feb 2, 2023Feb 2, 2023

    • Cello-v2-webapp-gui

      Public
      This is the source for the GUI that supports the Cello v2 webapp. This repository exists only for development purposes. If you want to use the GUI, either visit…
      guisynthetic-biologywebappcellogenetic-circuit-design-automationbio-design-automation
      JavaScript
      •3•1•5•19•Updated Jan 7, 2023Jan 7, 2023

    • SS-Analyzer

      Public
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•3•Updated Dec 8, 2022Dec 8, 2022

    • genetic-circuit-partitioning

      Public
      Partitioning a randomly sythesized graph, or
      Python
      •
      MIT License
      •0•1•0•0•Updated Nov 14, 2022Nov 14, 2022

    • eugenecad

      Public
      The web site of the Eugene ecosystem
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Oct 26, 2022Oct 26, 2022