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Allen Institute for Cell Science

Allen Institute Open Source projects for general use.

49 followers
Seattle, WA

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aics-ml-segmentation aics-ml-segmentationPublic
Python 32 11
cyto-dl cyto-dlPublic
Python 32 11
aics-segmentation aics-segmentationPublic
Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow
Jupyter Notebook 27 17
cvapipe_analysis cvapipe_analysisPublic
Analysis of data produced by cvapipe for the variance paper
Jupyter Notebook 24 7
aics-shparam aics-shparamPublic
Python 23 7
napari-allencell-segmenter napari-allencell-segmenterPublic
A plugin that enables image segmentation provided by Allen Institute for Cell Science
Python 20 8

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Showing 10 of 44 repositories

cell-feature-explorer Public
Plot and explore data that is linked to images, with an embedded viewer
AllenCell/cell-feature-explorer's past year of commit activity
TypeScript 3 1 68 (8 issues need help) 4 Updated Aug 12, 2026
cell-catalog Public
Cell catalog 2.0
AllenCell/cell-catalog's past year of commit activity
TypeScript 0MIT 0 11 5 Updated Aug 12, 2026
idea-board Public
AllenCell/idea-board's past year of commit activity
TypeScript 0 2 11 4 Updated Aug 12, 2026
endothelial-pipeline Public
Dynamics of ML-based morphological features indicate a shear stress-dependent bifurcation of hiPSC-derived endothelial cell states
AllenCell/endothelial-pipeline's past year of commit activity
Python 2BSD-3-Clause 0 3 0 Updated Aug 3, 2026
action-electron-builder Public Forked from samuelmeuli/action-electron-builder
GitHub Action for building and releasing Electron apps
AllenCell/action-electron-builder's past year of commit activity
JavaScript 0MIT 236 0 0 Updated Jun 15, 2026
cellpack-client Public
Frontend interface for cellPACK
AllenCell/cellpack-client's past year of commit activity
TypeScript 0 0 6 1 Updated May 20, 2026
celldive-explore Public
Inventory + cross-slide heterogeneity characterization for CellDive multiplex IF data
AllenCell/celldive-explore's past year of commit activity
Python 0MIT 0 0 0 Updated May 13, 2026
lumenoid_spatial_trans_annotator Public
Napari-based cell boundary annotation tool for producing Cellpose-compatible benchmark masks from DAPI tiles of lumenoid spatial-transcriptomics images.
AllenCell/lumenoid_spatial_trans_annotator's past year of commit activity
Python 0BSD-3-Clause 0 0 0 Updated May 12, 2026
cyto-dl Public
AllenCell/cyto-dl's past year of commit activity
Python 32 11 11 10 Updated May 12, 2026
slurm-monitor Public
Lightweight SLURM resource usage monitoring for aics and aics_gpu partitions
AllenCell/slurm-monitor's past year of commit activity
Python 0 0 0 0 Updated Apr 29, 2026

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