8000 brsynth repositories · GitHub

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BioRetroSynth

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84 repositories

rp2paths
Public
RetroPath2.0 to pathways
synthetic-biology synbio
Python
•
MIT License
•10•17•0•0•Updated Jun 23, 2025Jun 23, 2025
galaxytools
Public
Galaxy wrappers of SynBioCAD tools suite
synthetic-biology systems-biology galaxy-project
HTML
•
MIT License
•0•0•0•1•Updated Jun 23, 2025Jun 23, 2025
molecule-signature-paper
Public
Code supporting the paper 'Getting Molecules from their Fingerprints: Generative Models vs. Deterministic Enumeration'
chemistry signature fingerprint generative-model chemoinformatics molecular-generation deterministic-enumeration
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Jun 18, 2025Jun 18, 2025
molecule-signature
Public
Signature based molecule enumeration from morgan fingerprints
synthetic-biology fingerprint chemoinformatics generative-ai
Python
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MIT License
•0•0•0•0•Updated Jun 17, 2025Jun 17, 2025
chebirgroup
Public
Systematic expansion of R-group for ChEBI molecules from the RHEA database
r-group chebi rhea
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Jun 13, 2025Jun 13, 2025
reservoir
Public
Jupyter Notebook
•0•0•0•0•Updated May 1, 2025May 1, 2025
RetroPathRL
Public
Reinforcement Learning based bioretrosynthesis tool
synthetic-biology synbio metabolic-engineering retropath
Python
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MIT License
•18•50•1•0•Updated Apr 2, 2025Apr 2, 2025
RRParser
Public
Reaction rules parser
Python
•
MIT License
•0•2•0•0•Updated Mar 31, 2025Mar 31, 2025
RetroPath2-wrapper
Public
Python wrapper for Retropath2.0 Knime workflow
synthetic-biology synbio metabolic-engineering
JavaScript
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MIT License
•1•8•3•0•Updated Mar 6, 2025Mar 6, 2025
icfree-ml
Public
Design of experiments (DoE) and machine learning packages for the iCFree project
design-of-experiments latin-hypercube-sampling cell-free machine-learning
Python
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MIT License
•2•5•0•0•Updated Feb 20, 2025Feb 20, 2025
PINN
Public
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Jan 8, 2025Jan 8, 2025
icfree-feedstock
Public
A conda-smithy repository for icfree.
BSD 3-Clause "New" or "Revised" License
•4•0•0•0•Updated Nov 6, 2024Nov 6, 2024
bioconda-recipes
Public
Conda recipes for the bioconda channel.
Shell
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MIT License
•3.5k•0•0•0•Updated Sep 16, 2024Sep 16, 2024
brs-utils
Public
Utilities
Python
•
MIT License
•0•1•0•0•Updated Sep 4, 2024Sep 4, 2024
neo4jsbml
Public
Bridge the gap between SBML data and Neo4j
bioinformatics neo4j sbml
Python
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MIT License
•0•4•0•1•Updated Sep 2, 2024Sep 2, 2024
extractor_brendapy
Public
Python
•0•0•0•0•Updated Jul 26, 2024Jul 26, 2024
amn_release
Public
Jupyter Notebook
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MIT License
•4•13•3•1•Updated May 8, 2024May 8, 2024
straindesign
Public
Library to perform metabolic engineering tasks
flux-balance-analysis metabolic-engineering metabolic-pathways bioinformatics
Python
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MIT License
•0•5•2•1•Updated Apr 29, 2024Apr 29, 2024
brendapy
Public
BRENDA parser in python
Python
•
GNU Lesser General Public License v3.0
•6•0•0•0•Updated Mar 18, 2024Mar 18, 2024
rptools
Public
Suite of tools that work on rpSBML format
synthetic-biology systems-biology synbio metabolic-engineering
HTML
•
MIT License
•2•7•4•1•Updated Mar 5, 2024Mar 5, 2024
neo4jsbml-feedstock
Public
A conda-smithy repository for neo4jsbml.
BSD 3-Clause "New" or "Revised" License
•2•0•0•0•Updated Mar 4, 2024Mar 4, 2024
galaxy
Public
Data intensive science for everyone.
Python
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Other
•1.1k•0•0•0•Updated Feb 28, 2024Feb 28, 2024
active_learning_cell_free
Public
Scripts to perform active learning as described in the referenced article.
Jupyter Notebook
•11•13•0•0•Updated Feb 23, 2024Feb 23, 2024
tools-iuc
Public
Tool Shed repositories maintained by the Intergalactic Utilities Commission
HTML
•
MIT License
•463•0•0•0•Updated Feb 15, 2024Feb 15, 2024
AMN_refactor
Public
This is a simple refactorization of some use case of the AMN code
Jupyter Notebook
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MIT License
•1•0•0•0•Updated Feb 12, 2024Feb 12, 2024
brsynth.github.io
Public
Website landing page
HTML
•0•0•0•0•Updated Jan 25, 2024Jan 25, 2024
.github
Public
0•0•0•0•Updated Jan 15, 2024Jan 15, 2024
DNA-BOT
Public
Python
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MIT License
•23•1•0•0•Updated Dec 13, 2023Dec 13, 2023
taxonid
Public
Get taxon id from NCBI taxonomy database
Python
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MIT License
•0•0•0•0•Updated Oct 24, 2023Oct 24, 2023
staged-recipes
Public
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
Python
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Apache License 2.0
•5.3k•0•0•0•Updated Aug 30, 2023Aug 30, 2023

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