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@AllenCell

Allen Institute for Cell Science

Allen Institute Open Source projects for general use.

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  1. aics-ml-segmentation aics-ml-segmentation Public

    Python 31 9

  2. aics-segmentation aics-segmentation Public

    Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow

    Jupyter Notebook 28 12

  3. cvapipe_analysis cvapipe_analysis Public

    Analysis of data produced by cvapipe for the variance paper

    Jupyter Notebook 23 6

  4. aics-shparam aics-shparam Public

    Python 20 4

  5. napari-allencell-segmenter napari-allencell-segmenter Public

    A plugin that enables image segmentation provided by Allen Institute for Cell Science

    Python 16 6

  6. segmenter_model_zoo segmenter_model_zoo Public

    scripts and API for running Deep Learning models from segmenter

    Jupyter Notebook 10 1

Repositories

Showing 10 of 31 repositories
  • EMT_image_analysis Public

    Repository for EMT image analysis code

    AllenCell/EMT_image_analysis’s past year of commit activity
    Python 1 1 6 2 Updated Mar 28, 2025
  • benchmarking_representations Public

    Benchmarking different methods for extracting unsupervised representations from images

    AllenCell/benchmarking_representations’s past year of commit activity
    Python 2 1 5 0 Updated Mar 27, 2025
  • aics-cytoparam Public
    AllenCell/aics-cytoparam’s past year of commit activity
    Python 7 1 2 0 Updated Mar 26, 2025
  • allencell-segmenter-ml Public

    Napari plugin for ml segmentation

    AllenCell/allencell-segmenter-ml’s past year of commit activity
    Python 2 1 164 0 Updated Mar 24, 2025
  • aics-shparam Public
    AllenCell/aics-shparam’s past year of commit activity
    Python 20 4 0 0 Updated Feb 25, 2025
  • EMT_data_analysis Public

    This repo contains code for EMT deliverable data analysis and has dependencies associated with output from EMT_image_analysis repo.

    AllenCell/EMT_data_analysis’s past year of commit activity
    Python 1 0 1 0 Updated Feb 12, 2025
  • nuc-morph-analysis Public
    AllenCell/nuc-morph-analysis’s past year of commit activity
    Python 0 0 0 0 Updated Feb 10, 2025
  • cvapipe_analysis Public

    Analysis of data produced by cvapipe for the variance paper

    AllenCell/cvapipe_analysis’s past year of commit activity
    Jupyter Notebook 23 6 2 2 Updated Dec 23, 2024
  • i2k_workshop_2024 Public

    CytoDL demo for I2K 2024

    AllenCell/i2k_workshop_2024’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 11, 2024
  • camera-alignment-core Public

    Core algorithms for alignment of two-camera microscopy imagery

    AllenCell/camera-alignment-core’s past year of commit activity
    Python 0 1 5 3 Updated Oct 4, 2024
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