seung-lab

Repositories

• cloud-files

  Threaded client for AWS S3, Google Cloud Storage (GCS), in-memory, and the local filesystem.

  cli client key-value s3 concurrency parallel google-cloud-storage
  Python BSD-3-Clause 0 10 3 0 Updated Nov 11, 2020

• AnnotationFrameworkClient
  Python 0 0 1 0 Updated Nov 11, 2020

• metroem_release

  Forked from supersergiy/metroem_release
  Jupyter Notebook 1 0 0 0 Updated Nov 11, 2020

• scalenet

  Forked from supersergiy/scalenet

  A universal pytorch module for implementing multiscale architectures (UNet, spacial pyramid, SpyNet, res-Unet)
  Python Apache-2.0 1 0 0 0 Updated Nov 11, 2020

• torchfields

  A PyTorch add-on for working with image mappings and displacement fields, including Spatial Transformers
  Python MIT 0 16 0 3 Updated Nov 11, 2020

• EMAnnotationSchemas

  Repository to hold schemas for annotations of volumetric imaging data focused on EM
  Python MIT 2 1 4 2 Updated Nov 10, 2020

• modelzoo

  Trained models for public use
  Python MIT 0 0 0 0 Updated Nov 10, 2020

• neuroglancer

  Forked from google/neuroglancer

  WebGL-based viewer for volumetric data
  TypeScript Apache-2.0 176 16 61 7 Updated Nov 10, 2020

• PyChunkedGraph

  Chunked graph structure used for human proof-reading in Python
  Python GPL-3.0 3 10 15 3 Updated Nov 10, 2020

• dijkstra3d

  Dijkstra's Shortest Path for 6, 18, and 26-Connected 3D Image Volumes

  python cpp pathfinding path-planning a-star dijkstra 3d
  C++ GPL-3.0 4 22 2 0 Updated Nov 10, 2020

• igneous

  Python cloud pipeline for Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Remapping, and more.

  visualization python docker kubernetes cloud python3 meshing
  Python GPL-3.0 12 14 5 1 Updated Nov 8, 2020

• connected-components-3d

  Connected components on multilabel 3D & 2D images. Handles 26, 18, and 6 connected variants.

  python algorithm cpp numpy cython image-processing neighborhood
  Python GPL-3.0 11 80 7 2 Updated Nov 7, 2020

• seuron

  Forked from wongwill86/air-tasks
  Python MIT 6 0 0 0 Updated Nov 6, 2020

• SEAMLeSS

  SEAMLeSS (under active development)
  Python MIT 1 5 4 9 Updated Nov 6, 2020

• DataProvider3

  DataProvider for Python3
  Jupyter Notebook MIT 2 1 0 1 Updated Nov 4, 2020

• chunkflow

  Compose chunk operators to create pipeline for distributed computation

  image-processing chunk image-segmentation connectome volumetric-data 3d-images convnet-inference
  Python Apache-2.0 5 17 10 1 Updated Nov 3, 2020

• kimimaro

  Skeletonize densely labeled 3D image segmentations with TEASAR.

  python voxel python3 image-segmentation python2 centerline connectomics
  Python GPL-3.0 6 46 8 0 Updated Nov 2, 2020

• seuron_examples

  Forked from wongwill86/examples

  InfraKit examples
  Shell Apache-2.0 14 0 0 0 Updated Nov 1, 2020

• cloud-volume

  Read and write Neuroglancer datasets programmatically.

  python cloud big-data serverless numpy matrix s3
  Python BSD-3-Clause 25 53 34 3 Updated Oct 30, 2020

• python-task-queue

  Threaded task queue with timed leasing of tasks. Implementations for SQS and local filesystem.

  python filesystem sqs sqs-queue task-scheduler task-queue cloud-queues
  Python BSD-3-Clause 6 7 3 1 Updated Oct 29, 2020

• deflate

  Forked from dcwatson/deflate

  Python extension wrapper for libdeflate.
  C MIT 2 0 0 0 Updated Oct 28, 2020

• compresso

  Forked from VCG/compresso

  Compresso: Efficient Compression of Segmentation Data For Connectomics

  compression segmentation connectomics
  C++ MIT 3 1 0 1 Updated Oct 24, 2020

• AnnotationEngine

  A flask app rest interface for adding annotations to a cloud volume segmentation
  Python MIT 0 1 4 1 Updated Oct 22, 2020

• NeuroglancerAnnotationUI
  Python Apache-2.0 0 2 0 0 Updated Oct 21, 2020

• contact-points

  Find contact points in a 3D Volume.

  numpy image-processing 3d volumetric-data connected-components
  Python Apache-2.0 0 2 0 0 Updated Oct 21, 2020

• artificery

  Forked from supersergiy/artificery
  Python Apache-2.0 1 0 0 0 Updated Oct 20, 2020

• middle_auth_client
  Python 0 0 1 0 Updated Oct 16, 2020

• modelhouse

  Forked from supersergiy/modelhouse
  Python 1 0 0 0 Updated Oct 14, 2020

• MicronsBinder

  Forked from AllenInstitute/MicronsBinder

  A collection of notebooks to provide examples of using Microns-explorer.org datasets
  Jupyter Notebook 1 0 0 0 Updated Oct 14, 2020

• gtbot

  Make ground truthing a little easier
  Python MIT 0 0 0 0 Updated Oct 7, 2020