Posted by
Rasband, Wayne (NIH/NIMH) [E] on
URL: http://imagej.273.s1.nabble.com/Isolating-the-background-pixels-from-foreground-pixels-tp5003764p5003769.html
On Jul 4, 2013, at 4:49 PM, Geology Guy wrote:
> Dear Karsten,
> Thanks for your response. I checked the Edit> Options> Colors and the
> background is black while the Foreground is White. This is what I expect
> because after reading the Image J manual, I learnt that Image J only makes
> calculations from binary images when the background is black and the
> foreground is white.
This is not correct. To eliminate ambiguity, it is best to use Image>Adjust>Threshold to threshold images to be measured using the Measure command and the particle analyzer. Measurements done by Analyze>Measure are limited to thresholded pixels when "Limit to Threshold" is enabled in Analyze>Set Measurements.
-wayne
> I am using the default thresholding (i.e. AUTO) and checked the DARK
> BACKGROUND BOX. Then when I was ready to do binary image a,dialogue box
> popped up and I unchecked the box next to "BLACK FOREGROUND and WHITE
> BACKGROUND". Again this setting that I am using is because the Image J
> manual recommended a background that is black and white foreground in order
> to be able to carry out calculations involving binary imaging. Or am I wrong
> somewhere maybe that's why the background pixels are getting picked up in
> the foreground when I try to calculate Area for foreground objects ONLY?
> Thanks for your help.
> --
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