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Spot detector scale 2 and 3

by IcyLyd / IcyLyd

This protocol allows detecting spots using wavelet spots detector plugin.
It combines the wavelets spot detector for scale 2 and 3 and export the spots localization in a single ROI over the picture to visualize them on a single layer.

version 1 (last version):

Download to use and modify in Icy. How do I use protocols ? A Problem ? ask the community.
Changelog for this version: initial version

Documentation

It’s useful to test different sensitivity and check visually the results using the layer tab (clicking on and off on the eye) to get the clusters over the picture.

Combination of scale 2 & 3 allows to detect in one step small and bigger spots.

The user can chose the channel where to detect spots (bloc #1), indicate the sensitivity of the scale 2 (#2) and scale 3 (#3).

The color, opacity, and name of the ROI can be changed in bloc #8.

Set Roi properties

By default, the ROI is blue, opacity (80%) and named “MySpots”.

For space saving, some parameters are externalized, so that the workflow can be collapsed and used in other protocol.

Collapsed workflow

 

 

 

 

 

 

 

 

 

Here is an image and the expected result (you can download it on http://lydia.danglot.free.fr/Icy/SynapsesLydia.tif):

By clicking on and off on the eye in the layer tab, you can see the clusters over the picture.

SpotDisplay

SpotUndisplayed



Icy protocol publication Id : N8K6I5