bwlabel doesn't work as expected and what would be ideal method to segment disconnected regions like this example

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Gopichandh Danala
Gopichandh Danala 2017-2-10
编辑： Omkar Patil 2017-2-16
Hi,
This is a segmented image of a brain from thresholding segmentation, Now I want to get A, B, and C regions, which are all brain regions.
when I apply some kind of operation. For now, i am using bwlabel to find the blob areas and correspondingly extract bigger or circular blobs of some kind and get blobs A, B,and C. but the problem is when I do bwlabel I don't get A, B blobs.
Here is the code and attached images before and after bwlabel:
temp = before_dicomFiles{1,15};
%figure, imshow(temp, [LOW1 HIGH1]);
temp = double(temp);
newImg = temp; % this is the actual brain image used for thresholding
newImg(newImg <0 ) = 0; % set all negative pixels to zeros
newImg(newImg >1080) = 0; % remove anything over this range
figure, imshow(newImg, [LOW1 HIGH1]); % thresholded image
BW = bwlabel(newImg,8) ;
figure, imshow(BW, []) % Labelled image missing A, Blob areas
Suggest me some methods to trace back regions A, B and also better segmentation methods to not miss all the brain regions
Thanks, Gopi

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Image Analyst
Image Analyst 2017-2-16
Try this:
binaryImage = temp > 1080;
% Fill holes (depends on skull having a hole through it.
binaryImage = imfill(binaryImage, 'holes');
% Extract 3 largest blobs.
binaryImage = bwareafilt(binaryImage, 3);
labeledImage = bwlabel(binaryImage);
props = regionprops(labeledImage, temp);
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Image Analyst
Image Analyst 2017-2-16
You might try using bwconvhull to get the convex hull. Then use imerode() to shrink it down. Then use that as a mask to "erase" the outer parts (skull, etc.);
mask = bwconvhull(binaryImage);
mask = imerode(mask, true(15));
binaryImage(~mask) = false;
% Then the previous code I gave.
Omkar Patil
Omkar Patil 2017-2-16
编辑：Omkar Patil 2017-2-16
Thanks, I will try this and give you an update next time I go to lab, Oops i am commenting from my friends computer

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更多回答（1 个）

Saurabh Gupta
Saurabh Gupta 2017-2-15
You can use the Image Segmenter App to perform the segmentation, then export it as a MATLAB script to observe the methodology used to implement further tasks in an automated manner.

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