Short Description

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


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.


7 reviews on “Manual Counting

  1. j
    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.
  2. R
    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".
  3. r
    University of Vienna MFPL
    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?
  4. m
    When objects of interest are small, the ROI detect label can mask some of them. There should be an option to display only the marker. As said below, it would be better to have the counts in a separate window, here again to avoid masking part of the image. After testing Spot Detector, it would be nice to be able to run it on a given image, and then use Manual Counting to pick up the missed objects, and clean up the false positives. After trying Spot Detector on immuno images, the resu

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  • Version • Released on: 2014-04-14 11:08:30

    New functions:
    - color cycling

  • Version • Released on: 2014-04-11 10:50:21

    - Pan is enabled
    - Event on click instead of onPressed

  • Version • Released on: 2014-04-08 17:56:39

    Minor fix

  • Version • Released on: 2014-04-08 14:07:04