On Feb 8, 2013, at 10:34 AM, Brenda wrote:
> Hello everyone. I'm looking for some advice for automating image processing for a big batch of 3 color fluorescent images. I'm imaging red, green or blue fluorescence as a single channel. The output of the microscope's software is in RGB color, therefore 1 channel has information and the other 2 channels are blank. Quirk of the software and I'm stuck with it. I have been manually doing a RGB split, closing the blank channels, and manually RGB merge.
>
> Measuring the intensity of the data image gives me a number (345671) while measuring the blank ones gives me zero.
>
> Any ideas on how to put that in a macro?
You can measure the red channel of an RGB image using
setRGBWeights(1, 0, 0);
run("Measure");
Or extract the red channel of an RGB image using
setRGBWeights(1, 0, 0);
run("8-bit");
and then type "m" *Analyze>Measure) to measure it.
You can create "1" and "2" keyboard shortcuts for these operations by adding the following two macros to the ImageJ/macros/StartupMacros.txt file.
-wayne
macro "Measure Red Channel [1]" {
setRGBWeights(1, 0, 0);
run("Measure");
}
macro "Extract Red Channel [2]" {
setRGBWeights(1, 0, 0);
run("8-bit");
}
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Feb 08, 2013; 3:34pm
