Repositories list

• NeptuneGUI_2026

  Public
  GUI code for Neptune_2026

  Vue

  •11 fork•00 stars•00 issues•00 pull requests•Updated Aug 27, 2026Aug 27, 2026

• 3DuF

  Public
  Interactive microfluidic design editor

  microfluidicsfluigi

  microfluidicsfluigi

  TypeScript

  •

  BSD 2-Clause "Simplified" License

  •7272 forks•8383 stars•5757 issues•3535 pull requests•Updated Aug 27, 2026Aug 27, 2026

• knox

  Public
  Full stack application for creating, combining, and storing combinatorial genetic design spaces.

  graph-algorithmssynthetic-biologycombinatorial-algorithms+ 1

  graph-algorithmssynthetic-biologycombinatorial-algorithmsgenetic-design

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •3939 forks•1515 stars•99 issues•55 pull requests•Updated Aug 26, 2026Aug 26, 2026

• knoxAI

  Public
  A Machine Learning Microservice for Knox

  graph-algorithmssynthetic-biologyregression-algorithms+ 2

  graph-algorithmssynthetic-biologyregression-algorithmscombinatorial-algorithmsranking-algorithms

  Python

  •

  BSD 2-Clause "Simplified" License

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 26, 2026Aug 26, 2026

• pyLFR

  Public
  Python

  •33 forks•33 stars•1212 issues•33 pull requests•Updated Aug 20, 2026Aug 20, 2026

• pyMINT

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •22 forks•11 star•44 issues•33 pull requests•Updated Aug 20, 2026Aug 20, 2026

• Microfluidics-Benchmarks

  Public
  Consolidated Repo of Test Cases and Benchmarks

  Mint

  •

  BSD 3-Clause "New" or "Revised" License

  •22 forks•00 stars•00 issues•22 pull requests•Updated Aug 20, 2026Aug 20, 2026

• ctRSD-simulator-API

  Public
  FastAPI Microservice for the Sequence Compiler

  Python

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 16, 2026Aug 16, 2026

• KnoxApp

  Public
  Full stack application for creating, combining, storing, and analyzing combinatorial genetic design spaces.

  machine-learninggraph-algorithmssynthetic-biology

  machine-learninggraph-algorithmssynthetic-biology

  BSD 2-Clause "Simplified" License

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 14, 2026Aug 14, 2026

• 3DuF-Paper-Designs

  Public
  Designs used in the 3DuF paper

  toolcaddesigner+ 2

  toolcaddesigneracademic-projectmicrofluidics

  Python

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jul 26, 2026Jul 26, 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

  •55 forks•33 stars•22 issues•66 pull requests•Updated May 10, 2026May 10, 2026

• DAFD

  Public
  Python

  •77 forks•1717 stars•00 issues•1414 pull requests•Updated Feb 3, 2026Feb 3, 2026

• pyFluigi

  Public
  C++

  •55 forks•11 star•11 issue•11 pull request•Updated Nov 13, 2025Nov 13, 2025

• Oriole

  Public
  Verilog

  •22 forks•00 stars•00 issues•00 pull requests•Updated Mar 29, 2025Mar 29, 2025

• Vespa-Algorithm

  Public
  Python

  •11 fork•11 star•00 issues•00 pull requests•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

  •1414 forks•2121 stars•00 issues•00 pull requests•Updated Sep 16, 2024Sep 16, 2024

• constellation-js

  Public
  Library for combinatorially specifying, constraining, and exploring genetic design spaces.

  JavaScript

  •

  MIT License

  •88 forks•11 star•00 issues•11 pull request•Updated Aug 26, 2024Aug 26, 2024

• goldbar-generator

  Public
  Tool for GOLDBAR Generation using Rule Templates

  synthetic-biology

  synthetic-biology

  Python

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 26, 2024Aug 26, 2024

• dafd-website

  Public
  Python

  •11 fork•44 stars•00 issues•99 pull requests•Updated Aug 6, 2024Aug 6, 2024

• pigeon

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •44 forks•33 stars•66 issues•55 pull requests•Updated Mar 23, 2024Mar 23, 2024

• mint-parchmint-scripts

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 8, 2023Nov 8, 2023

• UCFormatter

  Public
  modify and visualize UCF files containing genetic part specifications

  Python

  •

  MIT License

  •11 fork•22 stars•00 issues•00 pull requests•Updated Jun 11, 2023Jun 11, 2023

• genetic-circuit-partitioning-new

  Public
  Python

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•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

  •11 fork•00 stars•00 issues•11 pull request•Updated May 22, 2023May 22, 2023

• drop2image

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 11, 2023May 11, 2023

• Peripheral-Manager

  Public
  Talk to USB devices from the browser

  httpflaskmiddleware+ 3

  httpflaskmiddlewarehardwaresocket-iobridge

  Python

  •

  BSD 2-Clause "Simplified" License

  •22 forks•33 stars•11 issue•22 pull requests•Updated May 1, 2023May 1, 2023

• DAFD_Metrics

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 5, 2023Mar 5, 2023

• Neptune

  Public
  JavaScript

  •

  BSD 3-Clause "New" or "Revised" License

  •66 forks•77 stars•1616 issues•11 pull request•Updated Feb 19, 2023Feb 19, 2023

• neural-optimizer

  Public
  Python

  •22 forks•33 stars•00 issues•88 pull requests•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-biologywebapp+ 3

  guisynthetic-biologywebappcellogenetic-circuit-design-automationbio-design-automation

  JavaScript

  •33 forks•11 star•55 issues•1919 pull requests•Updated Jan 7, 2023Jan 7, 2023