I assume you're doing something like this in your macro
---run("RGB Stack");
---run("Convert Stack to Images");
After that, use
---selectWindow("Red");
to select the window with the red channel.
This will work as long as you're working with only one image at a
time. If you break several images into color channels, there will be
multiple windows named "Red" and you'll have a chance of selecting the
wrong one. If that's the case, run this after you break up each image
---selectWindow("Red");
---someWindowID = getImageID();
Store different IDs in different variables, and use this to pick the
one you want.
---selectImage(someWindowID);
There's probabaly a better way to do it, but this way works for me.
Justin
On 10/3/06, Ryan Johnson <
[hidden email]> wrote:
> Hey all ImageJers,
>
> I'm using ImageJ to split full-color photographs of cell stains and am
> splitting them into RGB photographs (gives 3 B/W pictures based on the
> intensity of the various colors). However, I really want to be able to use
> a specific color (red) and have a macro automatically select this window to
> threshold it and analyze the particles. When I attempt this, my macro
> always just selects the topmost window (blue) and analyzes that. Obviously,
> I end up with erroneous results. Does anyone know how to script a macro in
> order for it to select a specific window? Or will I have to do it manually?
> Thanks in advance for any help!
>
> Ryan Johnson
> University of Colorado at Colorado Springs
>
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