Hi,
You'll still need to do a Threshold to determione what level of
intensity is stain and what isn't. Here is a little macro that let's you
set the threshold interactively.
Adjust the sliders on the Threshold panel to select the stain intensity
cutoffs. Hit the OK button on the "Action Required" dialog when you are
happy with the selection.
Hope this helps,
Rob
Macro:
//open file and get name
open();
imgName=getTitle();
run("Colour Deconvolution", "vectors=[H DAB]");
//close windows we don't need
selectWindow(imgName + "-(Colour_3)");
close();
selectWindow(imgName +"-(Colour_1)");
close();
selectWindow("Colour Deconvolution");
close();
//select window containing DAB stain and do an interactive threshold
selectWindow(imgName + "-(Colour_2)");
run("Threshold...");
waitForUser("adjust Threshold");
if (isOpen("Threshold")) {
selectWindow("Threshold");
run("Close" );
}
run("Convert to Mask");
//analyse stain area
run("Analyze Particles...", "size=0-Infinity circularity=0.00-1.00
show=Nothing display clear include summarize add");
On 01/08/2012 00:29, Gonzalo Bouchet wrote:
> Hello!
>
> I've reading about the H DAB Color Deconvolution vectors. Im a new user of
> the ImageJ so I vae to learn a lot! After applied the Pug ''H DAB Color
> Deconvolution vectors'', how can I measure the are occupied by the DAB? I
> read that the staining is not estequiometric so, can I use the are as a
> inderect measurement of ''quantity''? As for example another staining
> (Sirius Red)
>
> Thanks!
>
>
>
> --
> View this message in context:
http://imagej.1557.n6.nabble.com/Cuantify-DAB-tp4999622.html> Sent from the ImageJ mailing list archive at Nabble.com.
>
> --
> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>
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Centre for Molecular Medicine
MRC IGMM
University of Edinburgh
Western General Hospital
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Phone: (+44)-131-6511031
email:
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