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BioRetroSynth

Our group is interested in synthetic biology and systems metabolic engineering in whole-cell and cell-free systems.

Bio-RetroSynth

Bio-RetroSynth group

Our group is interested in synthetic biology in whole-cell and cell-free systems. We develop computational and wet lab protocols to search, design, and engineer biological pathways and networks. Other activities include structure-activity, sequence-function relationships, retrosynthesis, and the design of experiments using active and reinforcement machine learning methods. The applications of our work include synthetic metabolic pathways and genetic circuits engineering for bioproduction, biosensing, and biocomputing.

Popular repositories Loading

  1. RetroPathRL RetroPathRL Public

    Reinforcement Learning based bioretrosynthesis tool

    Python 49 18

  2. rp2paths rp2paths Public

    RetroPath2.0 to pathways

    Python 16 10

  3. active_learning_cell_free active_learning_cell_free Public

    Scripts to perform active learning as described in the referenced article.

    Jupyter Notebook 13 11

  4. RetroPath2-wrapper RetroPath2-wrapper Public

    Python wrapper for Retropath2.0 Knime workflow

    JavaScript 7 1

  5. rptools rptools Public

    Suite of tools that work on rpSBML format

    HTML 7 2

  6. amn_release amn_release Public

    Jupyter Notebook 6 4

Repositories

Showing 10 of 80 repositories
  • icfree-ml Public

    Design of experiments (DoE) and machine learning packages for the iCFree project

    brsynth/icfree-ml’s past year of commit activity
    Python 5 MIT 2 0 0 Updated Dec 18, 2024
  • galaxytools Public

    Galaxy wrappers of SynBioCAD tools suite

    brsynth/galaxytools’s past year of commit activity
    HTML 0 MIT 0 0 3 Updated Dec 17, 2024
  • icfree-feedstock Public Forked from conda-forge/icfree-feedstock

    A conda-smithy repository for icfree.

    brsynth/icfree-feedstock’s past year of commit activity
    0 BSD-3-Clause 4 0 0 Updated Nov 6, 2024
  • PINN Public
    brsynth/PINN’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Sep 18, 2024
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

    Conda recipes for the bioconda channel.

    brsynth/bioconda-recipes’s past year of commit activity
    Shell 0 MIT 3,323 0 0 Updated Sep 16, 2024
  • brs-utils Public

    Utilities

    brsynth/brs-utils’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Sep 4, 2024
  • RRParser Public

    Reaction rules parser

    brsynth/RRParser’s past year of commit activity
    Python 2 MIT 0 0 1 Updated Sep 3, 2024
  • RetroPath2-wrapper Public

    Python wrapper for Retropath2.0 Knime workflow

    brsynth/RetroPath2-wrapper’s past year of commit activity
    JavaScript 7 MIT 1 3 1 Updated Sep 3, 2024
  • neo4jsbml Public

    Bridge the gap between SBML data and Neo4j

    brsynth/neo4jsbml’s past year of commit activity
    Python 4 MIT 0 0 1 Updated Sep 2, 2024
  • brsynth/extractor_brendapy’s past year of commit activity
    Python 0 0 0 0 Updated Jul 26, 2024

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