Biomedical-image-processing Libraries

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Biomedical-image-processing Libraries

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

cc3d is an implementation of connected components in three dimensions using a 26, 18, or 6-connected neighborhood in 3D or 4 and 8-connected in 2D. This package uses a 3D variant of the two pass meth…

Python based dashboard for real-time Electrical Impedance Tomography including image reconstruction using Back Projection, Graz Consensus and Gauss Newton methods

Biomedical Imaging has previously been expensive and near impossible to hack and experiment with. If more people experimented and understood how imaging works we could move it forward much faster and…

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

Binaries are available for some platforms. If your platform is not supported, pip will attempt to install from source, in which case follow the instructions below. The scipy EDT took about 20 seconds…

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

Skeletons are a compact representation that can be used to visualize objects, trace the connectivity of an object, or otherwise analyze the object's geometry. Kimimaro was designed for use with high …

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