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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 160 68

  2. pytorch_integrated_cell pytorch_integrated_cell Public archive

    Integrated Cell project implemented in pytorch

    Python 44 13

  3. aicsimageio aicsimageio Public

    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++ 42 9

  5. cookiecutter-pypackage cookiecutter-pypackage Public

    A cookiecutter template to generate a new Python package.

    Python 23 7

Repositories

Showing 10 of 76 repositories
  • cyto-dl Public
    AllenCellModeling/cyto-dl’s past year of commit activity
    Python 29 8 10 5 Updated Nov 14, 2025
  • czifile Public archive

    czi reader from https://www.lfd.uci.edu/~gohlke/code/czifile.py.html

    AllenCellModeling/czifile’s past year of commit activity
    Jupyter Notebook 15 BSD-3-Clause 6 3 1 Updated Oct 15, 2025
  • pytorch_fnet Public archive

    Three dimensional cross-modal image inference

    AllenCellModeling/pytorch_fnet’s past year of commit activity
    Python 160 68 34 1 Updated Oct 15, 2025
  • CVAE_testbed Public archive

    A research testbed on conditional variational autoencoders using Gaussian distributions as input

    AllenCellModeling/CVAE_testbed’s past year of commit activity
    Jupyter Notebook 3 2 0 2 Updated Oct 15, 2025
  • brightfield2fish Public archive
    AllenCellModeling/brightfield2fish’s past year of commit activity
    Python 2 0 5 0 Updated Oct 15, 2025
  • DLITE Public archive

    Let's infer the forces that cells generate during time series by looking at the angles they make with each other.

    AllenCellModeling/DLITE’s past year of commit activity
    Jupyter Notebook 9 3 1 3 Updated Oct 15, 2025
  • diffusive_distinguishability Public archive

    Simulation of homogeneous diffusion, bayesian estimation of underlying diffusion constant, and analysis of distinguishability between diffusivity estimates

    AllenCellModeling/diffusive_distinguishability’s past year of commit activity
    Jupyter Notebook 3 1 0 0 Updated Oct 15, 2025
  • seq2loc Public archive
    AllenCellModeling/seq2loc’s past year of commit activity
    Jupyter Notebook 3 GPL-3.0 0 4 0 Updated Oct 15, 2025
  • fish_morphology_code Public archive

    Basic code and automated workflows to produce analysis friendly data from annotated FISH images

    AllenCellModeling/fish_morphology_code’s past year of commit activity
    Python 4 2 5 4 Updated Oct 15, 2025
  • QuiltLoader Public archive

    Adding custom attributes to quilt nodes

    AllenCellModeling/QuiltLoader’s past year of commit activity
    Python 4 GPL-3.0 0 0 0 Updated Oct 15, 2025
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