# Model reconstruction from CT slices

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Nuno on 10 Mar 2015
Commented: Nuno on 12 Mar 2015
Hello everyone,
I apologize if this topic was repeated but I have not found the solution yet. I have 537 DICOM images, and i can extract the coordinates (x,y) of the bony region (the intensity which is equal to 1). Now i need reconstruct all images in a 3D model and i have no idea how to do it. I need pair/match the pixels that are 1?
Best regards and thanks for your attention,
Nuno

Christiaan on 11 Mar 2015
Edited: Christiaan on 11 Mar 2015
Dear Nuno,
You can load and plot the individual DICOM images with the hand made code below. Make sure that the path of the m-file is equal to the path of the images. As a test I used the images from this thread .
clc;clear all;close all;
% Read the series of images.
for p=1:9
filename = sprintf('00000%d.dcm', p);
X(:,:,1,p) = imadjust(X(:,:,1,p),[0 0.022],[]); % increase contrast
end
for p=10:42
filename = sprintf('0000%d.dcm', p);
X(:,:,1,p) = imadjust(X(:,:,1,p),[0 0.022],[]); % increase contrast
end
numberOfSlices = p;
figure(1); montage(X,[]);
% to plot for example one image (here nr. 10)
figure(2); imshow(X(:,:,1,10))
The second step would be to stack the 2D images together. In this thread multiple possibilities are gives how to do this. A nice feature is sliding viewer. If you download that m-file and put the files in the map where also the images are located and then write in your matlab-prompt:
D=double(squeeze(X));
slidingviewer(D);
you will see a 3D image of your CT scan.
Good luck! Christiaan
Nuno on 12 Mar 2015
I need something like this :/

Image Analyst on 12 Mar 2015
Nuno on 12 Mar 2015
I will try . Thanks.