Flood-Filling Networks for instance segmentation in 3d volumes.

Euclidean distance & signed distance transform for multi-label 3D anisotropic images using marching parabolas.

Extraction of 3D skeletons from meshes.

Distributed, Versioned, Image-oriented Dataservice

Collaborative Annotation Toolkit for Massive Amounts of Image Data

Graph theory analysis of brain MRI data

Skeletonize densely labeled 3D image segmentations with TEASAR. (Medial Axis Transform)

PyTorch Connectomics: segmentation toolbox for EM connectomics

The ENIGMA Toolbox is an open-source repository for accessing 100+ ENIGMA statistical maps, visualizing cortical and subcortical surface data, and relating neuroimaging findings to micro- and macroscale brain organization. 🤠

Read and write Neuroglancer datasets programmatically.

Visualize, share and annotate your large 3D images online

A performant, powerful query framework to search for network motifs

Scalable Optical Flow-based Image Montaging and Alignment

Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute

KNOSSOS is a software tool for the visualization and annotation of 3D image data and was developed for the rapid reconstruction of neural morphology and connectivity.

NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.

Marching Cubes & Mesh Simplification on multi-label 3D images.

Performant, pure-Python subgraph isomorphism and monomorphism search (aka "motif search")

Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.

Brainconn - an R package for visualising brain connectivity data in 2D and interactive 3D

BRAPH 2.0 is a comprehensive software package for the analysis and visualization of brain connectivity data, offering flexible customization, rich visualization capabilities, and a platform for collaboration in neuroscience research.

No description provided.

Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.

Distributed segmentation for bio-image-analysis

A unified environment for DNN-based automated segmentation of neuronal EM images

Cython bindings for fpzip, a floating point image compression algorithm.

This is the python client for accessing REST APIs within the Connectome Annotation Versioning Engine.

FOD-Net: A Deep Learning Method for Fiber Orientation Distribution Angular Super Resolution

Janelia Workstation

Flood filling networks for segmenting electron microscopy of neural tissue