Dear Natalia,
The image called "blue"' contains only the blue components of your image. Your colour image is made up of 3 channels, red, green and blue.
Then you use the threshold sliders to select the area you want to measure based on the intensity (or grayscale). If you want all the blue area, you can use Auto.
After that, you go to Analyze - Set Measurements and select the parameters you want to measure, e.g. area, area fraction, grey value, etc. If you want to keep the image in grayscale (i.e. you don't want to apply the threshold and make it black and white), you also need to select Limit to Threshold.
Then go to Analyze - Measure and you will get the area occupied by the blue pixels which have been selected with your threshold step = number of pixels in this case. Is this what you want to measure?
If your "blue" colour is a particular mixture of red, green and blue, then the Threshold Colour plugin will be better for you, because you can select based on "hue". When you have made the selection there using the filters, you just go to Analyze, etc. in the same way as described above.
I hope this makes sense to you. You could also try looking at the User Guide on the documentation page.
Kind regards,
Jacqui
________________________________________
From: ImageJ Interest Group [
[hidden email]] on behalf of Natalia Chacon [
[hidden email]]
Sent: 06 November 2012 08:47
To:
[hidden email]
Subject: Re: Color Counter
Dear Ms. Jacqui Ross,
How does splitting the channels and then adjusting the threshold make
it simpliar for me the quantify the blue?
All I'm getting are split channels and then the threshold box indicating 0-233.
Is the 233 the quantifying of my color?
Please advise!
Thanks,
Natalia
On 11/2/12, Jacqui Ross <
[hidden email]> wrote:
> Hi Natalia,
>
> How about trying the plugin Threshold Colour instead? You can select based
> on hue and can try different colour spaces.
>
> Or if you really just want to count "blue", the easiest way is to split the
> channels (Image - Color - Split Channels) and quantify the "blue image using
> Image - Adjust threshold.
>
> If it's a histology image (e.g. H & E), you could also try the Colour
> Deconvolution plugin. It splits out the images based on vectors for each
> stain.
>
> Kind regards,
>
> Jacqui
> ________________________________________
> From: ImageJ Interest Group [
[hidden email]] on behalf of Natalia
> Chacon [
[hidden email]]
> Sent: 03 November 2012 08:28
> To:
[hidden email]
> Subject: Color Counter
>
> Hello Everyone,
>
> I'm currently using Color Counter to anaylze an image of mine.
> I'm having some issues with selecting the "unique color" that the
> plugin claims it can quantify.
>
> Does anyone have any clue how I can select a specific color so that
> the plugin can count the number of pixels in my image?
>
> *Note, I'm just trying to quantify the color blue in my light microscope
> image.
>
> Thanks,
> Natalia
>
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Nov 02, 2012; 7:28pm
