Repositories list

• galaxytools

  Public
  Galaxy wrappers of SynBioCAD tools suite

  synthetic-biologysystems-biologygalaxy-project

  synthetic-biologysystems-biologygalaxy-project

  HTML

  •

  MIT License

  •00 forks•22 stars•00 issues•88 pull requests•Updated Oct 1, 2026Oct 1, 2026

• chemproflow

  Public
  Assessing substrate transport across cell membranes

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•11 pull request•Updated Sep 28, 2026Sep 28, 2026

• morganrxn

  Public
  A framework for modeling reactions in molecular fingerprint space

  bioinformaticscheminformaticsfingerprints+ 1

  bioinformaticscheminformaticsfingerprintsmolecular-property-prediction

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 28, 2026Sep 28, 2026

• BioBot

  Public
  HTML

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 25, 2026Sep 25, 2026

• rr_cache

  Public
  RetroRules Cache

  Python

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Sep 25, 2026Sep 25, 2026

• morganbiopilot

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 1, 2026Sep 1, 2026

• neo4jsbml

  Public
  Bridge the gap between SBML data and Neo4j

  bioinformaticsneo4jsbml

  bioinformaticsneo4jsbml

  Python

  •

  MIT License

  •00 forks•88 stars•00 issues•55 pull requests•Updated Aug 10, 2026Aug 10, 2026

• mutant-covid

  Public
  Growth-Based Classification of COVID-19 Using E. coli Metabolic Sensors

  bioinformaticsdeep-learningsynthetic-biology+ 1

  bioinformaticsdeep-learningsynthetic-biologymetabolic-modeling

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 5, 2026Aug 5, 2026

• bacterial_rc

  Public
  Living bacterial reservoir computers for information processing and sensing

  synthetic-biologyreservoir-computing

  synthetic-biologyreservoir-computing

  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 30, 2026Jul 30, 2026

• bioconda-recipes

  Public
  Conda recipes for the bioconda channel.

  Shell

  •

  MIT License

  •4.1k4.1k forks•00 stars•00 issues•00 pull requests•Updated Jul 24, 2026Jul 24, 2026

• rpviz

  Public
  Visualize pathways from the RetroPath Suite

  HTML

  •

  MIT License

  •22 forks•33 stars•00 issues•00 pull requests•Updated Jul 2, 2026Jul 2, 2026

• rplibs

  Public
  Libraries for rpTools

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• rpScore

  Public
  Computes a global score for a heterologous pathway. The score is calculated from a learning process based on reaction rules score, FBA and thermodynamics metric…

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• rpThermo

  Public
  Thermodynamics of metabolic pathways

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• rpExtractSink

  Public
  RetroPath2 sink generator

  Python

  •00 forks•11 star•11 issue•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• chemlite

  Public
  Library to define compounds, reactions, pathways

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 10, 2026Jun 10, 2026

• staged-recipes

  Public
  A place to submit conda recipes before they become fully fledged conda-forge feedstocks

  Python

  •

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

  •6.4k6.4k forks•00 stars•00 issues•00 pull requests•Updated Jun 10, 2026Jun 10, 2026

• rpFBA

  Public
  Perform Flux Balance Analysis on a single or collection of SBML files containing heterologous pathways.

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated May 29, 2026May 29, 2026

• selenzy-wrapper

  Public
  synbio

  synbio

  Python

  •

  MIT License

  •00 forks•22 stars•00 issues•00 pull requests•Updated May 13, 2026May 13, 2026

• rpCompletion

  Public
  Mono-component reactions completion

  Python

  •

  MIT License

  •22 forks•22 stars•00 issues•11 pull request•Updated Apr 15, 2026Apr 15, 2026

• amn_library

  Public
  AMN conda package

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• rxn_rebuild

  Public
  Rebuild full reaction from reaction rule

  Python

  •

  MIT License

  •00 forks•33 stars•00 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• brs-utils

  Public
  Utilities

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• damn_library

  Public
  damn conda package

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 26, 2026Feb 26, 2026

• rptools

  Public
  Suite of tools that work on rpSBML format

  synthetic-biologysystems-biologysynbio+ 1

  synthetic-biologysystems-biologysynbiometabolic-engineering

  HTML

  •

  MIT License

  •22 forks•77 stars•66 issues•22 pull requests•Updated Feb 20, 2026Feb 20, 2026

• retropath2-wrapper

  Public
  Python wrapper for Retropath2.0 Knime workflow

  synthetic-biologysynbiometabolic-engineering

  synthetic-biologysynbiometabolic-engineering

  JavaScript

  •

  MIT License

  •11 fork•1010 stars•00 issues•00 pull requests•Updated Feb 12, 2026Feb 12, 2026

• amn_light

  Public
  Python

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

• rp2paths

  Public
  RetroPath2.0 to pathways

  synthetic-biologysynbio

  synthetic-biologysynbio

  Python

  •

  MIT License

  •1010 forks•1818 stars•00 issues•00 pull requests•Updated Jan 28, 2026Jan 28, 2026

• Simulated-based-inference

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 27, 2026Jan 27, 2026

• active_learning_cobra

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 27, 2026Jan 27, 2026