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average rating: 3

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University of Vienna MFPL
13 Oct 2016 11:16
Nice counter, but it would be nice to have the counts in a separate window. Also, it would be nice to be able to save the counting data to an excel sheet. Finally, I can't figure out how to turn off the counting once I've started. Maybe there could be a window with stop/start/reset and save buttons?
22 Dec 2015 16:12
It is a great plugin but some functions miss.
I am 100% sure to convince biologists to use ICY when "Counting Manual" will have exactly the same functionalities as the ImageJ / Fiji "Cell Counter".
16 Oct 2015 18:27
A very handy plugin! I would really like a simple reset button to clear the counter and start over. Individual counter numbers for each color of marker would be a nice addition as well.
29 Sep 2015 17:19
For 2D is fantastic! Great tool!
Alexandre Dufour
24 Jun 2014 17:58
great but does not keep Z info ;)

Manual Counting

by Fabrice de Chaumont

Interactive counter.
Click on the sequence to add detection, see number of detection in ROIs directly over the sequence.

Publication Id
See technical details
View complete changelog


This plugin is an helper, designed to help you counting objects that we can't find automaticaly

  • To add a point, just click where you want to create the detection. This will be a ROI named 'detect'
  • To remove a point, right click on it.

On the sequence, you will see in the hand top-left corner:

  • Total number of detection
  • And for each ROI, its surface in pixels and in scaled unit. (micrometer, millimeters...), and the number of detection contained in it.