Neuron Tracing Vaa3D (BJUT FM Spanning Tree)

Description

Vaa3d BJUT Fast Marching Spanning Tree algorithm dockerised workflow for BIAFLOWS

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Neuron Tracing Vaa3D (MOST)

Description

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

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Neuron Tracing Vaa3D (MST)

Description

3D Neuron Tracing using Dockerized version of Vaa3D Minimum Spanning Tree (MST).

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Neuron Tracing Vaa3D (App2)

Description

Vaa3d All-Path-Pruning 2.0 (APP2) dockerised workflow for BIAFLOWS.

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QuickFit 3

Description

QuickFit 3 is a data evaluation software for FCS Fluorescence Correlation Spectroscopy and imagingFCS (imFCS) measurements, developed in the group B040 (Prof. Jörg Langowski) at the German Cancer Research Center (DKFZ). Actually QuickFit 3 itself is a project manager and all functionality is added as plugins. A set of tested plugins for FCS, imagingFCS and some microscopy-related image processing tasks is supplied together with the software.

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Mathematica

Description

Wolfram Mathematica (usually termed Mathematica) is a modern technical computing system spanning most areas of technical computing — including neural networksmachine learningimage processinggeometrydata sciencevisualizations, and others. The system is used in many technical, scientific, engineering, mathematical, and computing fields.

pydensecrf

Description

This is a (Cython-based) Python wrapper for Philipp Krähenbühl's Fully-Connected CRFs (version 2).

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PyTorch

Description

PyTorch is an open-source machine learning library for Python, based on Torch, used for applications such as natural language processing.

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VascuSynth

Description

VascuSynth is an ITK-based synthetic image generator. It synthesizes volumetric images of vascular trees and generates a .gxl file of the ground-truth tree structure. VascuSynth receives a number of .txt configuration files and is capable of generating both ground truth ('ideal') images and images with added noise. The user is capable of choosing from a set simple noise additions and artefacts.

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