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@uw-loci

UW-Madison LOCI

Laboratory for Optical and Computational Instrumentation: the UW-Madison research lab of Kevin Eliceiri

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  1. curvelets curvelets Public

    Curvelet-Transform based fibrillar collagen quantification (CurveAlign and CT-FIRE)

    MATLAB 28 18

  2. loci-scripts loci-scripts Public

    Scripts and macros for LOCI scientific problems

    Shell

  3. visbio-imagej visbio-imagej Public

    ImageJ plugins for 3D visualization using the VisAD toolkit

    Java 1

  4. misc-plugins misc-plugins Public

    Miscellaneous ImageJ plugins

    Java 2 1

  5. search-image-sc search-image-sc Public

    Image.sc search service

    Python

Repositories

Showing 10 of 133 repositories
  • EBEAM_dashboard Public

    EBEAM System GUI

    uw-loci/EBEAM_dashboard’s past year of commit activity
    Python 7 1 5 5 Updated Apr 17, 2026
  • qupath-extension-dl-pixel-classifier Public

    QuPath extension for deep learning pixel classification with Python training backend

    uw-loci/qupath-extension-dl-pixel-classifier’s past year of commit activity
    Java 0 Apache-2.0 0 1 5 Updated Apr 17, 2026
  • beam-controller Public

    EBEAM Beam Controller firmware code

    uw-loci/beam-controller’s past year of commit activity
    Python 1 1 0 1 Updated Apr 17, 2026
  • Flamingo_Control Public

    Controlling a Flamingo microscope from Python

    uw-loci/Flamingo_Control’s past year of commit activity
    Python 2 MIT 2 0 0 Updated Apr 17, 2026
  • qupath-extension-ppm Public

    Polarized light microscopy (PPM) modality extension for QuPath/QPSC

    uw-loci/qupath-extension-ppm’s past year of commit activity
    Java 0 Apache-2.0 0 0 0 Updated Apr 17, 2026
  • qupath-extension-tiles-to-pyramid Public

    An extension to allow the creation of a pyramidal image file from individual tiles, based on known tile positions.

    uw-loci/qupath-extension-tiles-to-pyramid’s past year of commit activity
    Java 0 Apache-2.0 1 0 4 Updated Apr 17, 2026
  • qupath-extension-qpsc Public

    Java based extension for QuPath allowing control of a microscope through MicroManager

    uw-loci/qupath-extension-qpsc’s past year of commit activity
    Java 1 Apache-2.0 0 0 0 Updated Apr 17, 2026
  • knob-box Public

    EBEAM Knob Box firmware

    uw-loci/knob-box’s past year of commit activity
    C++ 2 1 0 0 Updated Apr 17, 2026
  • cbmark_logger Public

    Data logger for cathode benchmarking experiment for the e-beam system. Logs and displays select data from experiment.

    uw-loci/cbmark_logger’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Apr 16, 2026
  • microscope_command_server Public

    Socket-based command server for remote microscope control and QuPath integration

    uw-loci/microscope_command_server’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Apr 16, 2026
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