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@AllenCellModeling

Allen Institute for Cell Science - Modeling

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  1. pytorch_fnet pytorch_fnet Public archive

    Three dimensional cross-modal image inference

    Python 161 68

  2. pytorch_integrated_cell pytorch_integrated_cell Public archive

    Integrated Cell project implemented in pytorch

    Python 44 13

  3. aicsimageio aicsimageio Public archive

    Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python

    Python 220 51

  4. aicspylibczi aicspylibczi Public

    Forked from elhuhdron/pylibczi

    Python module utilizing libCZI for reading Zeiss CZI files.

    C++ 45 10

  5. cookiecutter-pypackage cookiecutter-pypackage Public archive

    A cookiecutter template to generate a new Python package.

    Python 23 7

Repositories

Showing 10 of 75 repositories
  • czi-to-ome-xslt Public

    A repository of XSL transform sheets to map CZI metadata to OME.

    AllenCellModeling/czi-to-ome-xslt’s past year of commit activity
    XSLT 2 0 6 0 Updated Dec 18, 2025
  • aicsimageio Public archive

    Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python

    AllenCellModeling/aicsimageio’s past year of commit activity
    Python 220 51 2 0 Updated Dec 1, 2025
  • aics_dask_utils Public archive

    Utility functions commonly used by AICS projects for interacting with Dask

    AllenCellModeling/aics_dask_utils’s past year of commit activity
    Python 1 0 2 0 Updated Dec 1, 2025
  • cell-tracker-gnn Public archive Forked from talbenha/cell-tracker-gnn

    [ECCV 2022] Official PyTorch implementation of the paper - Graph Neural Network for Cell Tracking in Microscopy Videos

    AllenCellModeling/cell-tracker-gnn’s past year of commit activity
    Python 1 13 0 0 Updated Dec 1, 2025
  • crossmodal Public archive

    Cross modal analysis of RNA seq and images

    AllenCellModeling/crossmodal’s past year of commit activity
    Python 0 0 4 0 Updated Dec 1, 2025
  • mti_nma Public archive

    Normal mode analysis worflow

    AllenCellModeling/mti_nma’s past year of commit activity
    Python 0 0 3 1 Updated Nov 17, 2025
  • docker_pytorch_extended Public archive Forked from gregjohnso/docker_pytorch_extended

    Uses the pytorch docker image to build an extended image with jupyter notebook, and some other python utils

    AllenCellModeling/docker_pytorch_extended’s past year of commit activity
    Dockerfile 2 7 5 0 Updated Nov 17, 2025
  • cookiecutter-pypackage Public archive

    A cookiecutter template to generate a new Python package.

    AllenCellModeling/cookiecutter-pypackage’s past year of commit activity
    Python 23 MIT 7 1 0 Updated Nov 17, 2025
  • nvidia-docker-stats Public archive

    Monitor nvidia gpu unit load associated with docker spawned processes

    AllenCellModeling/nvidia-docker-stats’s past year of commit activity
    Python 29 GPL-3.0 13 1 2 Updated Nov 17, 2025
  • quilt3distribute Public archive

    People commonly work with tabular datasets, people want to share their data, this makes that easier through Quilt3.

    AllenCellModeling/quilt3distribute’s past year of commit activity
    Python 5 1 6 0 Updated Nov 17, 2025
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