Generating an image which is the standard deviation of four images.

[pang]

Dear ImageJ colleagues,

If I have four images A (x,y), B(x,y), C(x,y), and D(x,y). I would like to generate another image, and its pixel value is the standard deviation of the four images.
For example at location (1,1), its intensity at four images are  50, 50, 50, 50.  Then I want to generate a new image at location (1,1) its intensity is 0 (Since Standard deviation=0 )

How could I do that? Should I use Macro language, or javascript, or java?

Any suggest is appreciated as well as the codes.

Thanks!

Zhengyu
Zhengyu Pang, Ph.D.
Biochemistry and Bioanalytics Laboratory
Life Sciences and Medical Diagnostics Technology Organization
Diagnostics and Biomedical Technologies
GE Global Research, K1-5B37A
One Research Circle
Niskayuna, NY 12309
T: 518-387-4015
F: 518-387-7765

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[Gabriel Landini]

On Wednesday 31 Jul 2013 22:38:04 Pang, Zhengyu wrote:
> If I have four images A (x,y), B(x,y), C(x,y), and D(x,y). I would like to
> generate another image, and its pixel value is the standard deviation of
> the four images. For example at location (1,1), its intensity at four
> images are  50, 50, 50, 50.  Then I want to generate a new image at
> location (1,1) its intensity is 0 (Since Standard deviation=0 )
>
> How could I do that? Should I use Macro language, or javascript, or java?

If I understand correct, just make a stack with your images and then do a z-
projection chosing "standard deviation" as type.
Hope it helps

Gabriel

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[pang]

Gabriel,

This is definitely one solution, and it is the solution of using Macro language.

If I really want to do it using Java or Javascript, how should I write the code?

Thanks!

Zhengyu

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Gabriel Landini
Sent: Wednesday, July 31, 2013 5:45 PM
To: [hidden email]
Subject: Re: Generating an image which is the standard deviation of four images.

On Wednesday 31 Jul 2013 22:38:04 Pang, Zhengyu wrote:
> If I have four images A (x,y), B(x,y), C(x,y), and D(x,y). I would
> like to generate another image, and its pixel value is the standard
> deviation of the four images. For example at location (1,1), its
> intensity at four images are  50, 50, 50, 50.  Then I want to generate
> a new image at location (1,1) its intensity is 0 (Since Standard
> deviation=0 )
>
> How could I do that? Should I use Macro language, or javascript, or java?

If I understand correct, just make a stack with your images and then do a z- projection chosing "standard deviation" as type.
Hope it helps

Gabriel

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[Gabriel Landini]

On Wednesday 31 Jul 2013 23:04:00 Pang, Zhengyu wrote:
> This is definitely one solution, and it is the solution of using Macro
> language.
>
> If I really want to do it using Java or Javascript, how should I write the
> code?

You could use the macro recorder and specify recording javascript or a plugin
to produce something like:

imp = IJ.openImage("http://imagej.nih.gov/ij/images/mri-stack.zip");
IJ.run(imp, "Z Project...", "start=1 stop=27 projection=[Standard
Deviation]");
imp.show();

for javascript  or for a plugin:

import ij.*;
import ij.process.*;
import ij.gui.*;
import java.awt.*;
import ij.plugin.*;
import ij.plugin.frame.*;

public class My_Plugin implements PlugIn {

        public void run(String arg) {
                ImagePlus imp = IJ.openImage("http://imagej.nih.gov/ij/images/mri-stack.zip");
                IJ.run(imp, "Z Project...", "start=1 stop=27 projection=[Standard
Deviation]");
                imp.show();
        }

}

But if you want to code it directly, you will need to look at the source code
and see how it is done.
Cheers

Gabriel

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