Re: Help with surface descriptors!

Posted by Anderson, Charles (DNR) on
URL: http://imagej.273.s1.nabble.com/Help-with-surface-descriptors-tp5009390p5009403.html

Giuseppe,

Have a look at this link on "How to count nuclear foci":  http://microscopy.duke.edu/HOWTO/countfoci.html 
Try adding a small Gaussian blur, then see whether cells with single maxima vs. those with more than one will give the comparison you want.

Or try the Nuclei Counter plug-in. Or try template matching using your small images as templates. It is hard to form an answer when your example images show only a single cell in each.

Good luck.

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of giuseppe3
Sent: Thursday, August 28, 2014 12:17 AM
To: [hidden email]
Subject: Help with surface descriptors!

Hi there,

first of all I am an amateur imageJ user.

I need to come up with a variable (measurement) that can tell part the two attached images. These are yeast cells that have or don't have a high gray value close to the center of the cell.

<http://imagej.1557.x6.nabble.com/file/n5009390/peaked_cell.jpg>    
<http://imagej.1557.x6.nabble.com/file/n5009390/flat_cell.jpg>

I looked at the kurtosis but this is not enough as sometimes cells have high gray values on the edges and that results in an increased kurtosis value.

The plot surface for the two types of cells (peak near the center OR no peak/peak on the edges of cell) enhances the differences between these two groups but I don't know how to get descriptive numbers out of the plots.

Any help/comments?



--
View this message in context: http://imagej.1557.x6.nabble.com/Help-with-surface-descriptors-tp5009390.html
Sent from the ImageJ mailing list archive at Nabble.com.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html