Filament tracing

Filament tracing operations are image analysis operations in which there is an image of a filamentous structure (it may be a tree-like structure, a filament network or a agglomeration of single 'stick-like' filaments) as input and outputs data that represent the filament, most commonly a skeleton representation of the filaments and their diameters or surfaces.

Synonyms
Tubular structure extraction
biofilament tracing
Curvilinear structure reconstruction
Curvilinear structure detection
neuron image analysis
neuron reconstruction
Description

Vaa3d BJUT Fast Marching Spanning Tree algorithm dockerised workflow for BIAFLOWS

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Description

Blood vessels tracing in 3D image from 3D Gaussian blurring (user defined radius), local thresholding (user defined radius and offset) and 3D skeletonization. Dockerized version for BIAFLOWS,

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Description

Blood vessels tracing in 3D image from Tubeness filtering (user defined scale), 3D opening (radius set to 2), thresholding (user defined level) and 3D skeletonization.

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Description

3D Neuron Tracing with a Dockerized version of Vaa3D MOST Raytracer.

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Description

Rivuletpy dockerised workflow for BIAFLOWS.

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