Pinned Repositories
chunkflow
Compose chunk operators to create a pipeline for local or distributed petabyte-scale computation
cloud-volume
Read and write Neuroglancer datasets programmatically.
connected-components-3d
Connected components on discrete and continuous multilabel 3D & 2D images. Handles 26, 18, and 6 connected variants; periodic boundaries (4, 8, & 6)
dijkstra3d
Dijkstra's Shortest Path for 6, 18, and 26-Connected 3D (Volumetric) Image Volumes
DracoPy
Python wrapper for Google's Draco mesh compression library.
euclidean-distance-transform-3d
Euclidean distance & signed distance transform for multi-label 3D anisotropic images using marching parabolas.
fastremap
Remap, mask, renumber, unique, and in-place transposition of 3D labeled images. Point cloud too.
kimimaro
Skeletonize densely labeled 3D image segmentations with TEASAR. (Medial Axis Transform)
zmesh
Marching Cubes & Mesh Simplification on multi-label 3D images.
znn-release
Multi-core CPU implementation of deep learning for 2D and 3D sliding window convolutional networks (ConvNets).
seung-lab's Repositories
seung-lab/connected-components-3d
Connected components on discrete and continuous multilabel 3D & 2D images. Handles 26, 18, and 6 connected variants; periodic boundaries (4, 8, & 6)
seung-lab/kimimaro
Skeletonize densely labeled 3D image segmentations with TEASAR. (Medial Axis Transform)
seung-lab/cloud-volume
Read and write Neuroglancer datasets programmatically.
seung-lab/DracoPy
Python wrapper for Google's Draco mesh compression library.
seung-lab/zmesh
Marching Cubes & Mesh Simplification on multi-label 3D images.
seung-lab/fastremap
Remap, mask, renumber, unique, and in-place transposition of 3D labeled images. Point cloud too.
seung-lab/chunkflow
Compose chunk operators to create a pipeline for local or distributed petabyte-scale computation
seung-lab/igneous
Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.
seung-lab/cloud-files
Threaded Python and CLI client library for AWS S3, Google Cloud Storage (GCS), in-memory, and the local filesystem.
seung-lab/python-task-queue
Asynchronous serverless task queue with timed leasing of tasks. Threaded implementations for SQS and local filesystem.
seung-lab/fill_voids
Fill holes in binary 2D & 3D images fast.
seung-lab/neuroglancer
WebGL-based viewer for volumetric data
seung-lab/fastmorph
Multilabel and Grey 3D morphological image processing functions. Dilate, Erode, Opening, Closing, Hole Filling.
seung-lab/microviewer
Multiplatform 3D numpy image browser based viewer with voxel painting.
seung-lab/tinybrain
Image pyramid generation for grayscale and segmentation image resize.
seung-lab/crackle
3D dense segmentation compression codec based on crack codes.
seung-lab/seuron
SEUnglab neuRON pipeline
seung-lab/cross-section
Tools for computing properties of cross sections of 3D voxelized images.
seung-lab/ng-extend
seung-lab/abiss
Affinity based image segmentation system
seung-lab/NeuroBlender
Tutorial and source code based on CloudVolume and MeshParty for easy retrieval of neuron meshes and EM data for Blender visualization.
seung-lab/osteoid
Skeleton object used for representing neurons, adjacent cells, and organelles.
seung-lab/tile-transcoder
Transfer and convert the file format of image tiles.
seung-lab/tem2ng
Convert raw TEM microscope images into a neuroglancer volume.
seung-lab/ca3_paper
seung-lab/messaging-client
seung-lab/network-speed
Application for testing network speed in a variety of configurations.
seung-lab/ngl_bench
Manipulating neuroglancer and unraveling connectomes is an agentic problem.
seung-lab/openjpeg
Official repository of the OpenJPEG project
seung-lab/pytorch-emvision
PyTorch models.