Re: Chromatin condensation
Posted by
Lendl,Thomas on
Aug 03, 2015; 1:39pm
URL: http://imagej.273.s1.nabble.com/Re-Chromatin-condensation-tp5013860p5013866.html
Hi Oli,
Thanks a lot for your help, this looks promising. I'm just not sure how to interpret the result because It's somehow counterintuitive to have a lower contrast in more structured objects. Anyway I'll do a testrun on a couple more images to see if the output is consistent.
Best,
Thomas
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Burri Olivier
Sent: Montag, 03. August 2015 14:50
To:
[hidden email]
Subject: Re: Chromatin condensation
Hi Thomas,
I had some success in calibrating the chromatin condensation using the Texture Analyzer
http://rsb.info.nih.gov/ij/plugins/texture.htmlOn your images:
Cropped the Z stacks to contain slices with nuclei Ran the GLCM Texture plugin with a step size of 3 pixels
Looked at the Average Contrast output of each image and got these values
Control 229.209
Mid 205.782
Condensed 135.794
What I would suggest is try different step sizes to find the one that maximizes the delta between the conditions and perhaps use that.
You can also try the other metrics from the plugin, which have a similar trend (Except for Correlation, which makes sense);
Best
Oli
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