Posted by
William O'Connell on
URL: http://imagej.273.s1.nabble.com/new-Bio-Formats-tp3701686p3701697.html
Hi Nas,
For questions like this, the searchable ImageJ archives are useful:
https://list.nih.gov/archives/imagej.htmlHere's the answer wayne gave a few days ago for a related question:
<snip>
Get the ROI's mask and only process pixels that correspond to non-zero
pixels in the mask. Here is an example:
public void run(ImageProcessor ip) {
byte[] pixels = (byte[])ip.getPixels();
int width = ip.getWidth();
Rectangle r = ip.getRoi();
ImageProcessor mask = ip.getMask();
for (int y=r.y; y<(r.y+r.height); y++) {
for (int x=r.x; x<(r.x+r.width); x++) {
if (mask==null || mask.getPixel(x-r.x,y-r.y)!=0) {
...DO What YOU WISH TO DO
}
}
}
}
<snap>
Notice that the example assumes the data is 8-bit. For 16-bit data use 'short', for 32-bit data use 'float', for RGB use 'int'.
Here's another way, slower, but perhaps more transparent.
<snip>
byte[] pixels = (byte[])ip.getPixels();
int width = ip.getWidth();
Roi roi = Imp.getRoi();
Rectangle rect = roi.getBounds();
rx = rect.x; ry = rect.y; w = rect.width; h = rect.height;
for(int y=ry; y<ry+h; y++) {
for(int x=rx; x<rx+w; x++) {
if(roi.contains(x, y)) {
byte pixVal = pixels[y*width + x];
...DO What YOU WISH TO DO WITH pixVal
}
}
}
<snap>
-------------- Original message ----------------------
From: Nas <
[hidden email]>
> Dear all,
>
> I would like to get a list of the values for each
> pixel inside a ROI. how could I do that. I just know
> about the list that you can get through
> Analyze-->distribustion bye setting bins which is not
> what I'm looking for.
>
> Thanks for your help,
> Nas
>
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