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@imcf

IMCF

Imaging Core Facility, University of Basel

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  1. auto-tx auto-tx Public

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

    C# 32 2

  2. pyppms pyppms Public

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

    Python 6 4

  3. imcf-fiji-scripts imcf-fiji-scripts Public

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

    Python 4 4

  4. python-imcflibs python-imcflibs Public

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

    Python 1 3

  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 120 repositories
  • 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 0 Updated Sep 16, 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 0 Updated Sep 8, 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
  • 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 6 GPL-3.0 0 0 0 Updated Sep 1, 2026
  • imcf/vpt-plugin-cellpose2's past year of commit activity
    Python 0 Apache-2.0 3 0 0 Updated Aug 28, 2026
  • auto-tx Public

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

    imcf/auto-tx's past year of commit activity
    C# 32 GPL-3.0 2 9 (1 issue needs help) 0 Updated Aug 19, 2026
  • pyppms Public

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

    imcf/pyppms's past year of commit activity
    Python 6 4 1 1 Updated Aug 14, 2026
  • generate-well-points Public

    For a Nikon Ti2 microscope, generate an entire set of imaging coordinates according to a template from a set of reference points.

    imcf/generate-well-points's past year of commit activity
    Python 0 GPL-2.0 0 0 0 Updated Aug 11, 2026
  • imcf-fiji-update-site Public

    ☕ 🔬 🚚 🌍 Managing the "UniBas-IMCF" update site for Fiji.

    imcf/imcf-fiji-update-site's past year of commit activity
    Shell 0 2 4 1 Updated Aug 7, 2026
  • imcf.github.io Public

    IMCF github pages

    imcf/imcf.github.io's past year of commit activity
    HTML 0 0 0 0 Updated Aug 7, 2026

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