Skip to content
@imcf

IMCF

Imaging Core Facility, University of Basel

Pinned Loading

  1. auto-tx auto-tx Public

    🚚 AutoTx 🪄 - a smart background file transfer service for Windows.

    C# 32 2

  2. omero-downloader-gui omero-downloader-gui Public

    A simple OMERO downloader GUI using Python 🪄📥

    Python 2

  3. pyppms pyppms Public

    📑 🕙 🐍 A Python package to communicate with Stratocore's PUMAPI.

    Python 6 3

  4. imcf-fiji-scripts imcf-fiji-scripts Public

    🔧 📝 ☕ 🔬 Scripts for Fiji provided by the Imaging Core Facility, Biozentrum, University of Basel

    Python 4 4

  5. noisee noisee Public

    🔬 NoiSee: An easy-to-use ImageJ macro for measuring SNR (signal-to-noise ratio) of light microscopes.

    Python 4 1

  6. patchworks patchworks Public

    Tiled processing of arbitrarily large images — any image, any function.

    Python 18

Repositories

Showing 10 of 121 repositories
  • python-imcflibs Public

    🐍 ☕ 🔩 🔧 🪛 A collection of commonly used Python helper functions.

    imcf/python-imcflibs's past year of commit activity
    Python 1 GPL-3.0 4 10 3 Updated Oct 14, 2026
  • imcf-fiji-mocks Public

    Python mocks 🧌 providing dummy imports e.g. for testing the IMCF Fiji Python packages.

    imcf/imcf-fiji-mocks's past year of commit activity
    Python 1 3 0 0 Updated Oct 14, 2026
  • patchworks Public

    Tiled processing of arbitrarily large images — any image, any function.

    imcf/patchworks's past year of commit activity
    Python 18 GPL-3.0 0 1 1 Updated Oct 14, 2026
  • imcf.github.io Public

    IMCF github pages

    imcf/imcf.github.io's past year of commit activity
    HTML 0 0 0 0 Updated Oct 13, 2026
  • instanseg-fiji Public

    This repository is a thin wrapper around InstanSeg (https://github.com/instanseg), developed by Goldsborough, T. et al. (2024) for Fiji, making the model runnable easily from the Fiji GUI.

    imcf/instanseg-fiji's past year of commit activity
    Python 7 GPL-3.0 0 0 0 Updated Oct 12, 2026
  • napari-chunked-regionprops Public

    Napari measure widget — dask-image regionprops for huge labelled images

    imcf/napari-chunked-regionprops's past year of commit activity
    Python 0 GPL-3.0 0 0 1 Updated Oct 8, 2026
  • omero-downloader-gui Public

    A simple OMERO downloader GUI using Python 🪄📥

    imcf/omero-downloader-gui's past year of commit activity
    Python 2 GPL-3.0 0 2 0 Updated Oct 8, 2026
  • mesoSPIM-control Public Forked from mesoSPIM/mesoSPIM-control

    Image acquisition software for mesoSPIM light-sheet microscopes.

    imcf/mesoSPIM-control's past year of commit activity
    Python 0 GPL-3.0 20 0 0 Updated Oct 7, 2026
  • sopa Public Forked from prism-oncology/sopa

    Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoCycler / MACSima / etc)

    imcf/sopa's past year of commit activity
    Python 0 BSD-3-Clause 53 0 0 Updated Sep 3, 2026
  • vpt-plugin-cellpose2 Public Forked from Vizgen/vpt-plugin-cellpose2
    imcf/vpt-plugin-cellpose2's past year of commit activity
    Python 0 Apache-2.0 3 0 0 Updated Aug 28, 2026
View all repositories