specific area analysis

[lemmensstefanie]

Dear all,

I am trying to analyse the occupied area of blood vessel tubes, formed by endothelial cells. The images are taken by a phase contrast microscope.

I tried out to use the tool 'find edges', followed by 'treshold color'. Next, I was able to measure the selection made by the program.

However, there are also cells in the image I do not want to select. Is there anyway I could exlude these and only measure the area occupied by the tubes?

Thank you already for antwering my question,

With kind regards,

Stefanie Lemmens

[Василий Попков]

Hello.
Maybe you can try using ROI manager here in some ways. It seems quite
fitting ur request.
For example you can use something like Make Binary --> Invert --> Watershed
--> Analyze Particles (exclude add slice)
And after it open unadjusted image again and apply selected areas from ROI
to it (deselecting areas you dont want)

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[Cammer, Michael]

1.  Please post example pic(s) if you would like suggestions from people on the list.
2.  Our experience with this has been that fluorescent staining for the endothelial cells is the way to go.  High contrast computer friendly images that have no ambiguity of what is vessel and what isn't.
=========================================================================
 Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center
                          Cell:  914-309-3270     Temporary location:  SK2-7
          http://ocs.med.nyu.edu/microscopy & http://microscopynotes.com/


-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of lemmensstefanie
Sent: Friday, December 05, 2014 10:54 AM
To: [hidden email]
Subject: specific area analysis

Dear all,

I am trying to analyse the occupied area of blood vessel tubes, formed by endothelial cells. The images are taken by a phase contrast microscope.

I tried out to use the tool 'find edges', followed by 'treshold color'.
Next, I was able to measure the selection made by the program.

However, there are also cells in the image I do not want to select. Is there anyway I could exlude these and only measure the area occupied by the tubes?

Thank you already for antwering my question,

With kind regards,

Stefanie Lemmens



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[lemmensstefanie]

Dear all,

I have added a picture the illustrate the problem.



With kind regard,

Stefanie Lemmens