how can i reconstruct a 3 D image from Brain MRI segmented slices?

there are multiple segmented slices example

there are 186 slices now i'm trying to reconstruct these images what kind of algorithm apply to reconstruct these images????

Answer 1

[Image Analyst]

Explain what "reconstruct" means to you. Is it simply concatenating all slices into a 3-D volumetric image with cat(3) or indexing like:

for k = 1 : number of files
    thisImages2D = imread(......
    if k == 1
        [rows, columns, numberOfColorChannels] = size(thisImage2D);
        image3D = zeros(rows, columns, class(thisImage2D));
    end
    image3D(:, :, k) = thisImage2D;
end

Or do you mean something else?

[faisal aziz]

i mean to say a 3D visualization of brain MRI my project is brain mri segmentation and 3D visualization i'm done segmentation and also edge detection now i'm trying to build 3D view of brain tissues from 186 slices.

these type of images i had

[Image Analyst]

See this for ideas: http://www.mathworks.com/matlabcentral/answers/?term=tag%3A%22skull+stripping%22

[faisal aziz]

i'm not interested in skull stripping. my concern is all about 3d visualization. is there any code that combine 186 slices and show a 3d image of brain?????

[Image Analyst]

Well, not really. 3-D visualization in MATLAB is pretty primitive. You're limited to isosurfaces and cutaway views. Use isosurface() or slice(). For real 3-D volumetric volume visualization, you'll need to use a program like Avizo https://www.fei.com/software/avizo-3d/

[faisal aziz]

i'm using fused deposition modeling can you send me the code

[Image Analyst]

No.

Answer 2

[majedaldein almahasneh]

Hi,

have you tried using mesh?

 clc
close all
clear all
x = imread('imagename.bmp'); %read your image
Img1 = double(x); % convert to double
%imshow(Img1)
Img3d = mesh(Img1) %creats a third dimension for the pixels.

Please tell me how it goes!