Spot Detection 3D (ImageJ)

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Type
Workflow
Author
Tosí, Sébastien
Bäcker, Volker
Requires
ImageJ
FeatureJ Laplacian
Analyze Particles
Execution Platform
Linux
Mac
Windows
Implementation Type
plugin
Programming Language
ImageJ Macros
Supported image dimension
3D
Interaction Level
Automated
License/Openness
Free and open source
Description

This workflow detects spots from a 3D image by using straightforward set of ImageJ components. It receives the Laplacian Radius and the Threshold  value s input.

has function
Spot detection
Entry Curator
lascholz
Workflow steps
Step 1: Run FeatureJ Laplacian
FeatureJ Laplacian
Step 2: Run Minimum (3D)
Minimum (3D) Filter VIB Protocol
Step 3: Subtract Minimum image from Smoothed image
Image Calculator (KNIME)
Step 4: Threshold Minimum image
Thresholder (ImageJ)
Step 5: Run Threshold on Laplacian Image
Thresholder (ImageJ)
Step 6: Run AND operator on Laplacian image and Min image
Image Calculator (KNIME)
Step 7: Run Analyze Particles
Analyze Particles
Download Page
Neubias BIAFLOWS workflow of Spot Detection 3D with ImageJ