igneous-pipeline • Rank 19.3 • Science 77%

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

kimimaro • Rank 19.1 • Science 77%

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

nat • Rank 13.7 • Science 59%

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

edt • Rank 18.8 • Science 46%

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

https://github.com/google-research/connectomics • Rank 17.6 • Science 26%

https://github.com/google-research/sofima • Rank 17.4 • Science 26%

Scalable Optical Flow-based Image Montaging and Alignment

brainGraph • Rank 13.0 • Science 23%

Graph theory analysis of brain MRI data

https://github.com/bids-apps/ndmg • Science 13%

BIDS app for NeuroData's MRI to Graphs pipeline

webknossos • Science 49%

Visualize, share and annotate your large 3D images online

compresso • Science 28%

Compresso: Efficient Compression of Segmentation Data For Connectomics

braph-2 • Science 49%

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.

cnapse • Science 44%

Automated synapse detection in C. elegans EM images.