special case of remove particle

Posted by Rodrigo Gonçalves-4 on
URL: http://imagej.273.s1.nabble.com/how-to-disable-results-window-and-log-table-tp3688351p3688352.html

Dear all,

I'm observing particles in a stack. The stack was extracted from a VHS video, therefore some images contain outliers and "ghost" particles every one and then  (video signal artifacts).

My goal is to automatize the counting and tracking for the whole stack (as I have several stacks). Therefore I'm trying to "erase" everything from the stack that is not relevant (i.e., non actual particles). I can do the 98% of the job using the directly available tools in ImageJ to erase minor particles and enhance the visibility of the particles I want (adjusting brightness, despeckle, find edge, etc.).

BUT there are still a couple of dots in some frames (slices), which unfortunately are the same size as my particles and therefore I can not make ImageJ distinguish from the interest particles. The particularity of these evil dots is that they appear only in one or to consecutive slices, and then disappear. I can get rid of almost all the non-important particles with the
Particle Remover plugin (which is great!), but still have these
"transient" dots.


My question: do you know of something like a Particle Remover but with a temporal (or stack-playback) function? The parameter would be not only circularity and size, but also minimal frames of existence or something like that.

Or maybe I should try to create a macro in which I can tell the program that if the particle is present only in X consecutive frames (in my case, 2 as maximum), then delete those frames or mark them, etc.? I guess that this could be done with a macro or plugin (counting particles and comparing the number with the previous slice, etc.) but maybe some of you has already done it.

Thanks a lot in advance for your time,
Rodrigo

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Rodrigo J. Gonçalves

 

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