Watershed segmentation

Watershed is the term that commonly refers to a mathematical morphology operation that treats a grayscale image as a topographic map and segments the image. The segmentation is performed by a succesive 'flooding' operation from minima in the image starting from different points and separates the image in different catchment basins.|Needs a comment about the relation between the Watershed and Region growing.

Synonyms
Watershed transformation
Watershed-based segmentation
Description

This workflow processes images of cells with discernible nuclei and outputs a binary mask containing where nuclei are detected.

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Description

The macro will segment nuclei and separate clustered nuclei in a 3D image using a distance transform watershed. As a result an index-mask image is written for each input image.

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Description

Performs watershed algotirhm with ij-1.52i.jar. legacy:ij.plugin.filter.EDM("watershed").

has function
need a thumbnail
Description

The macro will segment nuclei and separate clustered nuclei using a binary watershed. As a result an index-mask image is written for each input image.

need a thumbnail

video tutorial on 3D vessel segmentation of synchrotron phase contrast tomography

Submitted by czhang on Tue, 01/29/2019 - 20:32

In this tutorial video, a coronary arterial tree is used as the demo example to show in detail how the semi-automatic segmentation workflow, Carving from the open-source image analysis software ilastik, can be used. Tips on how and why a preprocessing is done, as well as parameter settings are provided.