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    20 repositories

    • computer-aided-biotech.github.io

      Public
      Group website
      TeX
      •6•1•0•3•Updated Feb 20, 2026Feb 20, 2026

    • phenobooth-analysis

      Public
      Analysis of phenobooth data from a library screen
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•3•Updated Oct 18, 2023Oct 18, 2023

    • DNA_Tools

      Public
      Primer Design Tool
      Python
      •1•1•0•1•Updated Dec 13, 2022Dec 13, 2022

    • sabio_stuff

      Public
      Some sabio parsing stuff.
      Jupyter Notebook
      •0•0•0•0•Updated Jul 13, 2022Jul 13, 2022

    • better-cb

      Public
      A compendium of tools for (better) computational biology.
      reproducible-researchcomputational-biologymanuscripthacktoberfestmanubot
      HTML
      •
      Other
      •3•4•2•0•Updated Apr 21, 2022Apr 21, 2022

    • iMN22HE

      Public
      Methanoperedens nitroreducens genome-scale metabolic model.
      systems-biologymetabolismgenome-scale-modelsarchaeamethanotrophy
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Feb 8, 2022Feb 8, 2022

    • debary-omics

      Public
      Analysis of omics data for Debaryomyces hansenii
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Nov 18, 2021Nov 18, 2021

    • thesis

      Public
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •1•0•0•0•Updated Jan 20, 2021Jan 20, 2021

    • pyphe

      Public
      Python toolbox for phenotype analysis of arrayed microbial colonies
      Python
      •
      MIT License
      •3•0•0•0•Updated Dec 15, 2020Dec 15, 2020

    • r-studio-binder

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 2, 2020Dec 2, 2020

    • swiglpk

      Public
      Simple swig bindings for the GNU Linear Programming Kit
      Python
      •
      GNU General Public License v3.0
      •10•0•0•0•Updated Jan 9, 2020Jan 9, 2020

    • cameo

      Public
      cameo - computer aided metabolic engineering & optimization
      Python
      •
      Apache License 2.0
      •45•0•0•0•Updated Dec 10, 2019Dec 10, 2019

    • memote-meta-study

      Public
      Test metabolic models in the wild and rank them according to popularity and how easily they can be improved.
      HTML
      •
      Apache License 2.0
      •2•0•0•0•Updated Dec 10, 2019Dec 10, 2019

    • cell-factory-design-course

      Public
      https://biosustain.github.io/cell-factory-design-course/
      Jupyter Notebook
      •7•0•0•0•Updated Aug 27, 2019Aug 27, 2019

    • sanger-sequencing

      Public
      Python
      •
      Apache License 2.0
      •3•0•0•0•Updated Jul 9, 2019Jul 9, 2019

    • memote-meta-models

      Public
      3•0•0•0•Updated Apr 11, 2019Apr 11, 2019

    • fermentation-mpc

      Public
      Model predictive control (MPC) for fermentations
      Jupyter Notebook
      •3•0•0•0•Updated Feb 28, 2019Feb 28, 2019

    • marsi

      Public
      Metabolite Analogues for Strain Improvement
      Python
      •
      Apache License 2.0
      •2•0•0•0•Updated Jan 7, 2019Jan 7, 2019

    • ec_iYO844

      Public
      Enzyme constrained B. subtilis model (based on iYO844)
      MATLAB
      •2•0•0•0•Updated Dec 15, 2018Dec 15, 2018

    • gnomic

      Public
      A grammar for describing microbial genotypes and phenotypes
      Python
      •
      Other
      •2•0•0•0•Updated Sep 4, 2017Sep 4, 2017