Projects in Awesome Lists by vanvalenlab
A curated list of projects in awesome lists by vanvalenlab .
https://github.com/vanvalenlab/deepcell-tf
Deep Learning Library for Single Cell Analysis
cell-biology deep-learning instance-segmentation tensorflow
Last synced: 16 May 2025
https://github.com/vanvalenlab/deepcell-label
Cloud-based data annotation tools for biological images
annotate-images biology flask image-segmentation javascript python react xstate
Last synced: 12 May 2025
https://github.com/vanvalenlab/cellSAM
Codebase for "A Foundation Model for Cell Segmentation"
Last synced: 07 May 2025
https://github.com/vanvalenlab/cellsam
Codebase for "A Foundation Model for Cell Segmentation"
Last synced: 07 Apr 2025
https://github.com/vanvalenlab/kiosk-console
DeepCell Kiosk Distribution for Kubernetes on GKE and AWS
helm helmfile kubernetes tensorflow-serving
Last synced: 12 May 2025
https://github.com/vanvalenlab/deepcell-tracking
Track cells and build cell lineages
Last synced: 27 Jul 2025
https://github.com/vanvalenlab/deepcell-spots
Deep Learning Library for Spot Detection
biological-data-analysis deep-learning spot-detection tensorflow
Last synced: 07 Apr 2026
https://github.com/vanvalenlab/publication-figures
Scripts capable of re-creating figures from Van Valen Lab publications
Last synced: 12 May 2025
https://github.com/vanvalenlab/deepcell-toolbox
Data processing tools associated with deepcell
Last synced: 14 Dec 2025
https://github.com/vanvalenlab/deepcell-applications
Run DeepCell Applications
deep-learning docker image-processing instance-segmentation
Last synced: 22 Jun 2025
https://github.com/vanvalenlab/caliban-toolbox
Data engineering toolbox for DeepCell
Last synced: 12 May 2025
https://github.com/vanvalenlab/tcga-utils
Utilities for handling whole slide images from the The Cancer Genome Atlas (TCGA) Dataset
Last synced: 12 May 2025
https://github.com/vanvalenlab/kiosk-imagej-plugin
An ImageJ Plugin for interacting with the DeepCell Kiosk
Last synced: 27 Jun 2025
https://github.com/vanvalenlab/kiosk-client
HTTP client utilities for interacting with the Deepcell kiosk
Last synced: 02 Mar 2026
https://github.com/vanvalenlab/kiosk-autoscaler
Automatically and efficiently scale Kubernetes GPU resources
Last synced: 10 Jun 2026
https://github.com/vanvalenlab/deepcell-label-processing
Scripts for processing and converting raw data to label format and creating DCL projects
Last synced: 17 Jul 2025
https://github.com/vanvalenlab/deepcell-retinamask
RetinaNet and RetinaMask models for object detection based on TensorFlow and DeepCell-tf.
maskrcnn object-detection retinanet tensorflow
Last synced: 17 May 2026
https://github.com/vanvalenlab/cloud-notebook-runner
Runs parameterized Jupyter notebooks with papermill on google cloud compute instances
Last synced: 31 Dec 2025
https://github.com/vanvalenlab/kiosk-frontend
DeepCell web application built using NodeJS, Express, React, and Webpack.
Last synced: 24 Jun 2026
https://github.com/vanvalenlab/torch-dynamicnuclearnet
DynamicNuclearNet implemented in PyTorch
Last synced: 01 Jul 2026
https://github.com/vanvalenlab/torch-mesmer
pytorch implementation of mesmer
Last synced: 05 Sep 2025
https://github.com/vanvalenlab/deepcell-auth
Authentication client for deepcell ecosystem
Last synced: 01 Jul 2026
https://github.com/vanvalenlab/hubmap-mean-expression-example
Minimal analysis example of data from cytokit+sprm pipeline output
Last synced: 14 Jun 2026
https://github.com/vanvalenlab/deepcell-datasets
React App for hosting curated datasets.
Last synced: 08 Jun 2026
https://github.com/vanvalenlab/kiosk-bucket-monitor
Monitors a cloud bucket and remove stale files.
Last synced: 10 Jun 2026
https://github.com/vanvalenlab/kiosk-data-processing
DEPRECATED: gRPC API for pre- and post-processing data
Last synced: 19 Jun 2026
https://github.com/vanvalenlab/deepcell-label-utils
Utilities for spatial cell labels
Last synced: 22 Jun 2026
https://github.com/vanvalenlab/deepcelltypes-demo-08-2023
Executable demo of deepcelltypes model pipeline
Last synced: 24 Jun 2026
https://github.com/vanvalenlab/cellsam-demo-site
Source code for cellsam.deepcell.org
Last synced: 07 Aug 2025
https://github.com/vanvalenlab/kiosk-redis-consumer
Consume the Kiosk's Redis Events
Last synced: 11 Sep 2025
https://github.com/vanvalenlab/kiosk-redis-janitor
Watches Redis and restarts any stalled jobs.
Last synced: 17 Jun 2025
https://github.com/vanvalenlab/kiosk-tf-serving
TensorFlow Serving with models hosted in the cloud
Last synced: 22 Jun 2026