Thank you very much for your reply, Bryan. I really appreciate it.
The options are available in ImageJ and I managed to do this for one image.
Another question, I have hundreds of images that require this analyses so,
I tried to record these steps in a macro (using Plugins -> Macros ->
Record).
#####################################
open("/home/ramprasad/Pictures/temp_single_wing/ed_10-1-1.jpg");
//run("Threshold...");
// Color Thresholder 1.48v
// Autogenerated macro, single images only!
min=newArray(3);
max=newArray(3);
filter=newArray(3);
a=getTitle();
run("HSB Stack");
run("Convert Stack to Images");
selectWindow("Hue");
rename("0");
selectWindow("Saturation");
rename("1");
selectWindow("Brightness");
rename("2");
min[0]=0;
max[0]=100;
filter[0]="pass";
min[1]=0;
max[1]=255;
filter[1]="pass";
min[2]=157;
max[2]=255;
filter[2]="pass";
for (i=0;i<3;i++){
selectWindow(""+i);
setThreshold(min[i], max[i]);
run("Convert to Mask");
if (filter[i]=="stop") run("Invert");
}
imageCalculator("AND create", "0","1");
imageCalculator("AND create", "Result of 0","2");
for (i=0;i<3;i++){
selectWindow(""+i);
close();
}
selectWindow("Result of 0");
close();
selectWindow("Result of Result of 0");
rename(a);
// Colour Thresholding-------------
run("Close");
run("HSB Stack");
run("ROI Manager...");
roiManager("Add");
roiManager("Measure");
#############################
This records every step in the analysis but not the one where I select
pixels to be saved in ROI manager. As a result, I'm not able to apply this
as a macro to do a batch analysis. Any idea how to go about this?
Thanks again.
Regards,
Ram
On Tue, Aug 18, 2015 at 4:25 PM, Bryan Sibert <
[hidden email]> wrote:
> Hello,
>
> I am using Fiji, so I'm not sure if these options are all present in
> ImageJ.
>
> You can use color threshold (Image>Adjust>Color Threshold...) to select the
> yellow pixels using the Hue slider. Once you have your pixels selected you
> can save the selection in the ROI manager.
>
> After your selection is saved, you can convert the image to an HSB stack
> (Image>Type>HSB Stack). The middle slice of the HSB stack is saturation.
>
> If you take the integrated density of your selection in this slice, that
> will provide you with a number for the overall saturation. (Analyze>Set
> Measurements, Analyze>Measure)
>
> I hope this helps.
>
> -Bryan
>
> On Tue, Aug 18, 2015 at 7:56 AM, ram prasad <
[hidden email]> wrote:
>
> > Hi all,
> >
> > I am a newbie trying to navigate through ImageJ waters. I have a question
> > and I'm hoping someone could help with that.
> >
> > I'm trying to calculate 1) the area occupied by yellow coloured pixels
> and
> > 2) quantify the intensity of yellow colour in the wings.
> >
> > After some struggle, I figured out how to do 1 but I have had no luck
> with
> > 2. I looked into some examples but I don't quite get it.
> >
> > Herewith, I have attached two images that show a difference in the
> > intensity (one is yellow and the other one is pale), for your reference.
> >
> > Please, let me know how I should go about this, any help would be
> > appreciated.
> >
> > Let me know if you need more details from my side.
> >
> > Thanks.
> >
> > Regards,
> > Ram
> >
> > --
> > ImageJ mailing list:
http://imagej.nih.gov/ij/list.html> >
>
> --
> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>
--
ImageJ mailing list:
http://imagej.nih.gov/ij/list.html
Locked
ed_10-2-1.jpg (836K)