David:
run("Compute Topography", "height threshold=[] saturate quadratic=20");
Thanks, that worked great!
Now how do I transpose(align) each set of x,y z pixels in the array by the (Slice #) in TopoJ?
I suppose I can write a macro to do this, but perhaps there is a math area for arrays in ImageJ?
Ethan
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of David Hovis
Sent: Sunday, October 07, 2012 8:12 PM
To:
[hidden email]
Subject: Re: Z project find max pixels in stack.
TopoJ
On Oct 7, 2012, at 7:59 PM, Ethan Cohen <
[hidden email]> wrote:
> Given a monochrome stack of 101 confocal images, I know I can find the x,y maxima of the image using
>
> run("Z Project...", "start=1 stop=101 projection=[Max Intensity]");
>
> But I want to generate an ImageJ macro in the Results array of the maximal value and its slice number, for each x,y pixel. Then I may be able to register a slightly warped image vertically (not in the x-y plane). I bet I am not alone with this sort of problem.
>
> Given a monochrome stack of images, is it possible in ImageJ (using any plugins) to extract the slice(s) at each x,y location that generated the maximal intensity? VolumeJ does not seem to do what I want.
>
> Ethan.
>
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