Posted by
Theresa Swayne on
May 23, 2014; 6:22pm
URL: http://imagej.273.s1.nabble.com/Is-there-a-mechanism-for-depth-cueing-of-a-stack-tp5007882p5007884.html
Hi Joel,
There are 2 options I know of.
In Fiji, you can do Image > Hyperstacks > Temporal Color-Code. This lets you pick the colors and generate a reference scale.
The Fiji Cookbook plugin package includes "Z Code Stack" which will generate a color-coded stack. You can then project it with your method of choice (such as Image > Stacks > Z Project and choose Max Intensity). I don't see a way to choose the colors there.
Hope this helps,
Theresa
On May 23, 2014, at 1:21 PM, "JOEL B. SHEFFIELD" <
[hidden email]> wrote:
> Greetings all,
>
> A colleague of mine has been interested in the processing option in our old
> Leica SP1 software that generates a rotating stack image in which the
> different positions in the stack are mapped to a color gradient. That is,
> the top of the stack is red, and the bottom is blue, with a gradient
> between them. I have looked for an implementation of this in the ImageJ
> materials, so far without luck. Does any have a suggestion, or am I
> missing something really obvious?
>
> Joel
>
>
> Joel B. Sheffield, Ph.D
> Department of Biology
> Temple University
> Philadelphia, PA 19122
> Voice: 215 204 8839
> e-mail:
[hidden email]
> URL:
http://astro.temple.edu/~jbs>
> --
> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>
------------------------------------
Theresa Swayne, Ph.D.
Associate Research Scientist
Manager, Confocal and Specialized Microscopy Shared Resource
Herbert Irving Comprehensive Cancer Center, Columbia University
1130 Saint Nicholas Ave, 222A
New York, NY 10032
212-851-4613
[hidden email]
http://hiccc.columbia.edu/research/sharedresources/confocal--
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