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40 repositories

torch-mesmer
Public
pytorch implementation of mesmer
Python
•
Other
•1•1•8•2•Updated May 1, 2026May 1, 2026
arnesearch
Public
Cryo electron tomography docking
Python
•0•0•0•0•Updated Apr 11, 2026Apr 11, 2026
cellsam-demo-site
Public
Source code for cellsam.deepcell.org
TypeScript
•1•0•2•20•Updated Feb 14, 2026Feb 14, 2026
deepcell-label-utils
Public
Utilities for spatial cell labels
Python
•
Other
•0•0•0•1•Updated Dec 22, 2025Dec 22, 2025
DeepCellTypes-2024_Wang_et_al
Public
Jupyter Notebook
•0•0•0•0•Updated Dec 2, 2025Dec 2, 2025
cellSAM
Public
Codebase for "A Foundation Model for Cell Segmentation"
Python
•
Other
•35•195•38•7•Updated Nov 11, 2025Nov 11, 2025
sfk_dms_paper
Public
Changhua Yu's code for SFK DMS paper
Jupyter Notebook
•
MIT License
•0•0•0•0•Updated Nov 8, 2025Nov 8, 2025
deepcell-spots
Public
Deep Learning Library for Spot Detection
deep-learning tensorflow biological-data-analysis
deep-learning tensorflow biological-data-analysis spot-detection
Python
•
Other
•5•23•5•0•Updated Oct 9, 2025Oct 9, 2025
deepcell-types
Public
Python
•
Other
•4•8•6•1•Updated Sep 9, 2025Sep 9, 2025
intro-to-deepcell
Public archive
An introduction to deepcell and deep learning
Jupyter Notebook
•
Other
•27•155•8•0•Updated Oct 21, 2024Oct 21, 2024
deepcell-tf
Public
Deep Learning Library for Single Cell Analysis
deep-learning tensorflow instance-segmentation
deep-learning tensorflow instance-segmentation cell-biology
Python
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Other
•106•474•53•2•Updated Aug 30, 2024Aug 30, 2024
Caliban-2024_Schwartz_et_al
Public
Jupyter Notebook
•
Apache License 2.0
•0•5•0•0•Updated Aug 8, 2024Aug 8, 2024
deepcell-tracking
Public
Track cells and build cell lineages
Python
•
Other
•6•35•9•0•Updated Aug 6, 2024Aug 6, 2024
deepcell-label
Public
Cloud-based data annotation tools for biological images
react javascript python
react javascript python flask biology image-segmentation annotate-images xstate
JavaScript
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Other
•17•86•61•8•Updated Feb 14, 2024Feb 14, 2024
Polaris-2023_Laubscher_et_al
Public
Jupyter Notebook
•
Other
•1•0•0•0•Updated Jan 31, 2024Jan 31, 2024
hubmap-mean-expression-example
Public
Minimal analysis example of data from cytokit+sprm pipeline output
Python
•0•0•0•0•Updated Dec 19, 2023Dec 19, 2023
deepcell-toolbox
Public
Data processing tools associated with deepcell
Python
•
Other
•9•11•7•0•Updated Nov 7, 2023Nov 7, 2023
deepcelltypes-demo-08-2023
Public
Executable demo of deepcelltypes model pipeline
Python
•0•0•0•0•Updated Aug 26, 2023Aug 26, 2023
kiosk-imageJ-plugin
Public
An ImageJ Plugin for interacting with the DeepCell Kiosk
Java
•
Other
•2•4•9•2•Updated Aug 24, 2023Aug 24, 2023
kiosk-console
Public
DeepCell Kiosk Distribution for Kubernetes on GKE and AWS
kubernetes helm tensorflow-serving
kubernetes helm tensorflow-serving helmfile
Shell
•
Other
•7•37•15•0•Updated Jul 12, 2023Jul 12, 2023
kiosk-redis-consumer
Public
Consume the Kiosk's Redis Events
Python
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Other
•0•0•6•1•Updated Jul 12, 2023Jul 12, 2023
deepcell-label-processing
Public
Scripts for processing and converting raw data to label format and creating DCL projects
Python
•1•1•0•1•Updated Jul 7, 2023Jul 7, 2023
kiosk-data-processing
Public
DEPRECATED: gRPC API for pre- and post-processing data
Python
•0•0•0•2•Updated Jul 5, 2023Jul 5, 2023
deepcell-datasets
Public
React App for hosting curated datasets.
react serverless
react serverless
Python
•
Other
•0•0•11•7•Updated Jun 26, 2023Jun 26, 2023
bebi205
Public
Repo for Caltech's Be/Bi 205 course
Jupyter Notebook
•
Other
•0•0•0•0•Updated May 31, 2023May 31, 2023
deepcell-applications
Public
Run DeepCell Applications
docker deep-learning image-processing
docker deep-learning image-processing instance-segmentation
Python
•
Other
•5•10•5•0•Updated Apr 19, 2023Apr 19, 2023
kiosk-frontend
Public
DeepCell web application built using NodeJS, Express, React, and Webpack.
JavaScript
•
Other
•0•1•6•8•Updated Feb 3, 2023Feb 3, 2023
kiosk-redis-janitor
Public
Watches Redis and restarts any stalled jobs.
Python
•
Other
•0•0•1•0•Updated Jun 30, 2022Jun 30, 2022
kiosk-autoscaler
Public
Automatically and efficiently scale Kubernetes GPU resources
Python
•
Other
•1•1•1•0•Updated Jun 30, 2022Jun 30, 2022
kiosk-tf-serving
Public
TensorFlow Serving with models hosted in the cloud
Python
•
Other
•0•0•2•0•Updated Jun 1, 2022Jun 1, 2022

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vanvalenlab

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All

40 repositories

torch-mesmer

arnesearch

cellsam-demo-site

deepcell-label-utils

DeepCellTypes-2024_Wang_et_al

cellSAM

sfk_dms_paper

deepcell-spots

deepcell-types

intro-to-deepcell

deepcell-tf

Caliban-2024_Schwartz_et_al

deepcell-tracking

deepcell-label

Polaris-2023_Laubscher_et_al

hubmap-mean-expression-example

deepcell-toolbox

deepcelltypes-demo-08-2023

kiosk-imageJ-plugin

kiosk-console

kiosk-redis-consumer

deepcell-label-processing

kiosk-data-processing

deepcell-datasets

bebi205

deepcell-applications

kiosk-frontend

kiosk-redis-janitor

kiosk-autoscaler

kiosk-tf-serving

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All

Repositories list

40 repositories