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@tyo-nu Keith Tyo's laboratory at Northwestern University

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    21 repositories

    • ModelSEEDpy

      Public
      Python package for building and analyzing models using ModelSEED
      Python
      •
      MIT License
      •17•0•0•0•Updated Aug 6, 2024Aug 6, 2024

    • DORA_XGB

      Public
      Supervised learning classifiers to predict feasibility of enzymatic reactions
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 21, 2024Jul 21, 2024

    • tdt-data-storage-paper

      Public
      Repository for all code related to the TdT HEK cell data storage paper
      Jupyter Notebook
      •0•0•0•0•Updated May 3, 2024May 3, 2024

    • PolyIDRS_Paper

      Public
      Code and Figures for the PolyIDRS paper.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Feb 17, 2024Feb 17, 2024

    • MINE-Database

      Public
      Metabolic In silico Network Expansion (MINE) Database Construction and DB Logic
      Python
      •
      MIT License
      •13•19•2•4•Updated Feb 14, 2024Feb 14, 2024

    • PHA_Design

      Public
      Repository containing resources for Polyhydroxyalkanoate design paper.
      MIT License
      •0•0•0•0•Updated Feb 2, 2024Feb 2, 2024

    • turtles

      Public
      TURTLES: Time-sensitive Untemplated Recording using TdT for Local Environmental Signals
      Jupyter Notebook
      •1•0•0•7•Updated Feb 11, 2023Feb 11, 2023

    • dynamic_cf_butanol_model

      Public
      Publication code repository for the dynamic kinetic model of cell-free metabolism and butanol synthesis (https://doi.org/10.1016/j.ymben.2023.01.009)
      MATLAB
      •0•1•0•0•Updated Feb 3, 2023Feb 3, 2023

    • MINE-Server

      Public
      RESTful API which serves as backend for tyo-nu/MINE-app
      Python
      •0•6•5•5•Updated Dec 8, 2022Dec 8, 2022

    • pickaxe_paper

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Nov 11, 2022Nov 11, 2022

    • MINE-app

      Public
      Web application for the MINE databases
      cheminformaticsmetabolomics
      CSS
      •
      MIT License
      •1•4•1•0•Updated Jun 8, 2022Jun 8, 2022

    • MINE-2.0-Paper

      Public
      All code used to generate results in MINE 2.0 paper
      Jupyter Notebook
      •0•1•0•0•Updated Jun 8, 2022Jun 8, 2022

    • em-accel

      Public
      MATLAB
      •0•0•0•0•Updated Aug 5, 2021Aug 5, 2021

    • 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
      •5k•0•0•0•Updated Mar 24, 2021Mar 24, 2021

    • c-auto-greene-2019

      Public
      MATLAB
      •0•0•0•0•Updated Apr 3, 2020Apr 3, 2020

    • ModelingDirectedEvolution

      Public
      Python
      •0•0•0•0•Updated Oct 15, 2019Oct 15, 2019

    • CellSort

      Public
      CellSort scripts (published 2016)
      Python
      •
      MIT License
      •1•1•0•0•Updated Aug 7, 2019Aug 7, 2019

    • Cluster_Analysis_Tools

      Public
      Python
      •0•0•0•0•Updated Jan 31, 2018Jan 31, 2018

    • nextgen4b

      Public
      A suite of tools to help analyze positional error rates in next-gen sequencing data
      Python
      •
      MIT License
      •0•1•1•0•Updated Sep 10, 2017Sep 10, 2017

    • SimAL

      Public
      Active learning for selecting compounds for characterizing enzymes (published 2017)
      Python
      •
      MIT License
      •1•2•0•0•Updated Aug 25, 2017Aug 25, 2017

    • SimScripts

      Public
      SimIndex, SimZyme
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 23, 2017Aug 23, 2017