[ITK] Determine surface area of certain region in image

[Matthias B]

Thank you for answering Dženan,
ok, the perimeter attribute is what I need.
Problem is that I don't see a way where I can1. Choose a label image to define the region2. Choose the 3D Image where the label will be aplied
At this moment it looks for me that the label image already contains the 3D data, which confuses me.

From: dzenanz at gmail.com
Date: Wed, 10 Aug 2016 08:32:53 -0400
Subject: Re: [ITK] Determine surface area of certain region in image
To: matthias.b at hotmail.com
CC: blowekamp at mail.nih.gov; community at itk.org

Hi Matthias,
perimeter should be surface area in 3D (which you can divide by 2 to eliminate back side if you have a very flat object). In 2D image, it is the circumference. In 2D image, you can get object's surface area by counting how many pixels it has and then multiplying that by the size of each pixel (spacing[0]*spacing[1]).
Regards,Dženan
On Wed, Aug 10, 2016 at 2:40 AM, Matthias B <matthias.b at hotmail.com> wrote:



Thank you for answering!
At this moment I get the perimeter in pixel units (not the surface area of my X,Y-data) of my labeled image.I have also really no idea how to use my 3D data with a labeled image. I see no way how to add 3D data to a LabelMap for example.
This is what I have at the moment.Dim labelShapeStatistics = New simple.LabelShapeStatisticsImageFilter()labelShapeStatistics.Execute(labelImage)Dim perimeterValue= labelShapeStatistics.GetPerimeter(1)
Thanks for any help, Matthias


From: blowekamp at mail.nih.gov
To: matthias.b at hotmail.com
CC: community at itk.org
Subject: Re: [ITK] Determine surface area of certain region in image
Date: Tue, 9 Aug 2016 15:58:56 +0000






Hello,



You should look into the label map framework [1]. In particular the LabelImageToShapeLabelMapFilter[2] and the Perimeter attribute [3] [4].



HTH,
Brad



[1] http://hdl.handle.net/1926/584
[2] https://itk.org/Doxygen/html/classitk_1_1LabelImageToShapeLabelMapFilter.html
[3] https://itk.org/Doxygen/html/classitk_1_1ShapeLabelObject.html#aff1209e925293c15775520ef89e97afb
[4] http://hdl.handle.net/10380/3342




On Aug 9, 2016, at 11:50 AM, Matthias B <matthias.b at hotmail.com> wrote:




Hello ITK-community,



At the moment I'm working with 3D Images with following structure: 100x80x3. Every pixel contains a X,Y,Z value.

I want to calculate the surface area of a certain region that I have defined with a boolean 2D-Image (100x80).
The surface area should only be calculated with the X,Y-data.



In Matlab I have experience with this by using the function bwboundaries on the boolean image. This function determines the indices of the the boundaries in clockwise direction.  Next I take the corresponding X,Y values of the indices so I can
 calculate the surface area with the function polyarea. 





Is this possbile with the ITK-library?



Thank you for your help guys.







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