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    • Cell_ACDC

      Public
      A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
      Python
      BSD 3-Clause "New" or "Revised" License
      301966011Updated May 28, 2026May 28, 2026
    • SpotMAX

      Public
      SpotMAX: a generalist framework for multi-dimensional automatic spot detection and quantification
      Jupyter Notebook
      GNU General Public License v3.0
      31400Updated May 21, 2026May 21, 2026
    • Scripts used to benchmark SpotMAX against other SOTA tools
      Python
      BSD 3-Clause "New" or "Revised" License
      0000Updated May 8, 2026May 8, 2026
    • Used to create a installer for Cell-ACDC
      Python
      BSD 3-Clause "New" or "Revised" License
      0410Updated Mar 16, 2026Mar 16, 2026
    • A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
      Python
      BSD 3-Clause "New" or "Revised" License
      30000Updated Feb 17, 2026Feb 17, 2026
    • Simulation and data analysis tools for inheritance of mitochondrial nucleoids in baker's yeast - Modified to take into account growth rate
      Jupyter Notebook
      GNU General Public License v3.0
      1000Updated Jan 9, 2026Jan 9, 2026
    • Fzo1Model

      Public
      Mitochondrial inheritance model used in Dengler et al
      MATLAB
      0000Updated May 5, 2025May 5, 2025
    • Pre-compiled python-javabridge for Windows. Microsoft Visual C++ NOT required.
      Python
      BSD 3-Clause "New" or "Revised" License
      0200Updated Feb 12, 2025Feb 12, 2025
    • a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      624000Updated Jan 8, 2025Jan 8, 2025
    • Source code used to analyse smFISH data in Chatzitheodoridou et al. 2024
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      0000Updated Jul 17, 2024Jul 17, 2024
    • A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
      Python
      BSD 3-Clause "New" or "Revised" License
      30000Updated Mar 19, 2024Mar 19, 2024
    • cellpose

      Public
      a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      624000Updated Feb 15, 2024Feb 15, 2024
    • This repo contains the first steps towards my master thesis
      Python
      1500Updated Oct 1, 2023Oct 1, 2023
    • Python wrapper for the Java Native Interface
      Python
      Other
      63000Updated Jul 21, 2023Jul 21, 2023
    • Collection of tools (widgets, utils, io functions, etc.) used by Cell-ACDC and spotMAX
      Python
      BSD 3-Clause "New" or "Revised" License
      0010Updated Jun 26, 2023Jun 26, 2023
    • SeelMito

      Public
      Python code used to analyse the microscopy data in Seel et al. 2023
      Python
      BSD 3-Clause "New" or "Revised" License
      0100Updated May 2, 2023May 2, 2023
    • Jupyter Notebook
      0000Updated Mar 15, 2023Mar 15, 2023
    • Portable Java 8 for Linux. Used for Cell-ACDC software to run BioFormats in Python
      Roff
      0000Updated Feb 17, 2022Feb 17, 2022
    • Portable Java 8 for macOS. Used for Cell-ACDC software to run BioFormats in Python
      Roff
      0000Updated Feb 17, 2022Feb 17, 2022
    • Portable Java 8 and JDK 8 for Windows. Used for Cell-ACDC software to run BioFormats in Python
      C
      1700Updated Feb 17, 2022Feb 17, 2022
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