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    26 repositories

    • camkii-cardiomyocyte-model

      Public
      Neonatal rat cardiomyocyte model and CaMKII dynamics
      Julia
      •
      MIT License
      •0•0•0•0•Updated Feb 21, 2026Feb 21, 2026

    • mmsb-bebi-5009

      Public
      Mathematical Modeling for Systems Biology
      juliacomputational-biologyjulialangjupyter-book
      Julia
      •
      MIT License
      •1•5•0•0•Updated Feb 20, 2026Feb 20, 2026

    • jl-abm

      Public
      ABM examples in Julia
      jupyterjuliajupyter-notebookjulia-languageagent-based-modelingjupyter-book
      MIT License
      •0•3•0•0•Updated Feb 19, 2026Feb 19, 2026

    • ReportTex

      Public template
      A LaTeX template for reports. Supported by Tectonic/Github CI/makefile
      TeX
      •1•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • ecme-rirr-dox

      Public
      Cardiomyocyte electrophysiology and bioenergetics model with doxorubicin perturbation
      Julia
      •
      MIT License
      •0•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • mmsb-bebi-5009-python

      Public archive
      Python notebooks for Mathematical modeling for Systems Biology
      pythoncomputational-biologyjupyter-book
      MIT License
      •0•0•0•1•Updated Nov 17, 2025Nov 17, 2025

    • mitodyn-ode

      Public archive
      Code for mitochondrial dynamics ODE manuscript.
      juliajulialangode-modelmitochondriajupyter-book
      Julia
      •
      MIT License
      •0•3•0•0•Updated Nov 17, 2025Nov 17, 2025

    • Mitochondrial-Network-Model

      Public archive
      Mitochondrial Network Agent-based Model by Chu and Tseng
      pythonmitochondria
      Jupyter Notebook
      •
      MIT License
      •0•1•0•2•Updated Nov 1, 2025Nov 1, 2025

    • confocal_mito_analysis

      Public
      Python
      •1•0•1•0•Updated Aug 14, 2025Aug 14, 2025

    • pipeGEM

      Public
      This is a package for visualizing and analyzing multiple metabolic models. It also allow users to integrate omic data, metabolic tasks, and medium data with gen…
      Python
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Jul 28, 2025Jul 28, 2025

    • APHRS2018-WenWei

      Public archive
      Source code for APHRS 2018 Taipei. Presenter: WenWei Tseng
      Julia
      •
      MIT License
      •0•0•0•0•Updated Jul 23, 2024Jul 23, 2024

    • mitochondria-retrograde-model

      Public archive
      Mitochondria Retrograde (RTG) Signalling model
      juliaode-modelmitochondriajupyter-book
      Julia
      •
      MIT License
      •0•2•1•2•Updated Jun 11, 2024Jun 11, 2024

    • DenT_

      Public
      DenT paper revision
      Python
      •0•0•0•0•Updated May 2, 2024May 2, 2024

    • Unet_Mito

      Public
      Python
      •1•0•0•0•Updated May 2, 2024May 2, 2024

    • ML-RNA-Seq

      Public
      Transcriptome and machine learning analysis of the impact of COVID-19 on mitochondria and multiorgan damage
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 19, 2023Dec 19, 2023

    • intro-github-vscode

      Public
      Lab introduction to Git, GitHub, and VS Code
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Nov 9, 2023Nov 9, 2023

    • bulk_rnaseq

      Public
      A pipeline of analyzing bulk RNAseq data
      R
      •0•1•0•1•Updated Oct 2, 2023Oct 2, 2023

    • mmsb-metanet

      Public archive
      Metabolic network and flux balance analysis for Mathematical modeling of systems biology
      MIT License
      •0•0•1•0•Updated May 26, 2023May 26, 2023

    • rnaseq_rtg_expression

      Public archive
      Visualize retrograde signalling (RTG) protein expressions from RNAseq data
      MIT License
      •0•0•0•3•Updated Jan 23, 2023Jan 23, 2023

    • ecme-model-descriptor

      Public archive
      Model descriptors for ECME (Electrophiology-Contraction and Mitochondrial Energetics) model
      TeX
      •0•0•1•2•Updated Jan 17, 2023Jan 17, 2023

    • DenT

      Public
      Python
      •0•0•0•0•Updated Sep 23, 2022Sep 23, 2022

    • cell-cycle-huang

      Public
      Cell cycle phases classification by Chi-Rong Huang
      Jupyter Notebook
      •0•0•0•0•Updated Sep 20, 2022Sep 20, 2022

    • RetroSignalModel.jl

      Public archive
      Original: https://github.com/stevengogogo/RetroSignalModel.jl
      juliamitochondria
      Julia
      •
      MIT License
      •0•0•1•0•Updated May 1, 2022May 1, 2022

    • MitoRetroDynamics

      Public archive
      Source code for the article: "Mathematical Model for the Study of Mitochondrial Retrograde Signaling Dynamics"
      Jupyter Notebook
      •1•0•0•0•Updated Mar 21, 2022Mar 21, 2022

    • MitosisClassification

      Public
      Final project of Deep Medical Image Analysis
      HTML
      •1•0•0•0•Updated Dec 1, 2021Dec 1, 2021

    • tree-of-life

      Public archive
      bioinformaticsphylogenetic-trees
      MIT License
      •0•0•0•0•Updated Sep 8, 2018Sep 8, 2018