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    • CBRdb

      Public
      A curated biochemical database that integrates and refines data from KEGG and ATLAS databases to support precise analyses of biochemical reaction data.
      Python
      MIT License
      212170Updated Apr 22, 2026Apr 22, 2026
    • A centralised set of tools for doing assembly theory calculations
      Python
      MIT License
      15131Updated Apr 13, 2026Apr 13, 2026
    • Directed string assembly index calculator using smallest grammar algorithm re-pair
      Python
      MIT License
      0220Updated Mar 5, 2026Mar 5, 2026
    • Patents

      Public
      Jupyter Notebook
      MIT License
      1100Updated Mar 25, 2025Mar 25, 2025
    • dagviz

      Public
      Visualization for DAGs
      HTML
      Apache License 2.0
      6000Updated Jan 27, 2025Jan 27, 2025
    • Julia source code to stabilize and clean up videos
      Jupyter Notebook
      0200Updated Nov 20, 2024Nov 20, 2024
    • ecg

      Public
      Pulling information from biological databases, and converting it into easy to use gmls for network science.
      Python
      MIT License
      24142Updated May 6, 2024May 6, 2024
    • HFSP

      Public
      Jupyter Notebook
      0100Updated Mar 12, 2024Mar 12, 2024
    • INNLab

      Public
      A python/pytorch package for invertible neural networks
      Python
      GNU General Public License v3.0
      77140Updated Jun 19, 2023Jun 19, 2023
    • A toolbox for integrated information theory.
      Jupyter Notebook
      Other
      105100Updated Feb 10, 2023Feb 10, 2023
    • abfjs

      Public
      A package for reading Axon Binary Format (ABF) files
      JavaScript
      MIT License
      04013Updated Jan 3, 2023Jan 3, 2023
    • caim

      Public
      A toolkit for analyzing time series extracted from fluorescence imaging data
      JavaScript
      MIT License
      061718Updated Jan 3, 2023Jan 3, 2023
    • InChI

      Public
      InChI library with CMake build system
      C
      Other
      0000Updated Mar 3, 2022Mar 3, 2022
    • dglmoore

      Public
      Doug's Slush Repository
      Jupyter Notebook
      MIT License
      0000Updated Dec 14, 2021Dec 14, 2021
    • Neet

      Public
      Simulating and analyzing dynamical network models
      Python
      Other
      106233Updated Dec 14, 2021Dec 14, 2021
    • A simple tool to explore images generated from simulations
      Julia
      MIT License
      0000Updated Dec 14, 2021Dec 14, 2021
    • Imogen.jl

      Public
      Imogen is a package for estimating information-theoretic quantities from data
      Julia
      MIT License
      1100Updated Dec 14, 2021Dec 14, 2021
    • Inform

      Public
      A cross platform C library for information analysis of dynamical systems
      C
      MIT License
      328150Updated Dec 14, 2021Dec 14, 2021
    • gPID

      Public
      Julia
      1100Updated Dec 14, 2021Dec 14, 2021
    • An implementation and generalization of Thurber's algorithm for orderable assembly spaces
      C++
      1130Updated Dec 14, 2021Dec 14, 2021
    • Julia
      MIT License
      0100Updated Oct 2, 2021Oct 2, 2021
    • Gomen.jl

      Public
      Simulating game-playing agents on a graph
      Julia
      MIT License
      0000Updated Aug 18, 2021Aug 18, 2021
    • Tools for simulating chemical evolution
      Python
      MIT License
      1300Updated Jul 2, 2021Jul 2, 2021
    • A toolkit for analyzing time series extracted from fluorescence imaging data
      Julia
      MIT License
      0100Updated May 12, 2021May 12, 2021
    • Yanbo's random projects
      Mathematica
      0000Updated Jan 31, 2021Jan 31, 2021
    • A simple "tutorial" on parallel programming with MPI
      Python
      0000Updated Aug 14, 2020Aug 14, 2020
    • A development package for Neet network randomizations.
      Python
      Other
      0000Updated Feb 18, 2020Feb 18, 2020
    • PyInform

      Public
      A Python Wrapper for the Inform Information Analysis Library
      Python
      MIT License
      1157110Updated Dec 2, 2019Dec 2, 2019
    • informjs

      Public
      A node.js wrapper for the Inform information analysis library
      HTML
      MIT License
      0000Updated Sep 20, 2019Sep 20, 2019
    • Gitting stuff done... maybe?
      0214Updated Aug 21, 2019Aug 21, 2019
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