stack multiple 2D images

Hi,

I have 2D images pertaining to different Z positions (lets say 10 mm, 20 mm, 30 mm etc), Now I would like to stack images belongs to all Z positions on the single plot.. Could some one help how to do this ??

Right now, I plotting the image indivdual 2D image as follows

imagesc (x,y,B); % Where B is the matrix which got the intensity values 

Answer 1

[Bjorn Gustavsson]

Unfortunately matlab is a bit weak when it comes to displaying volumetric data. You can use the slice function and use the alpha-parameters to modify the transparency. Something like this:

for iZ = nZ:-1:1
  V(:,:,iZ) = Bcell{iZ}; % just to get all the images into a 3-D array
end
idx_X = [12 37]; % Just example slices
idx_Y = [13 29];
idx_Z = [2 7];
ph = slice(X,Y,Z,V,idx_X,idx_Y,idx_Z),shading flat

and then setting the alpha and face-alpha-properties of ph (I have had some success using this earlier, when toying with this today, not so fortunate).

There's also a number of submissions on the FEX:

image3, imshow3d, 4-dimensional-visualization, hypervolume-viewer, sliceomatic, 3d-volume-slicer, 4d-volume-visualization and 3d-volume-visualizationviewer3d (I have surely missed a few...).

HTH

Answer 2

[Tim]

Matlab's volume visualization got a big boost with volshow a couple years ago, if you have the image processing toolbox. Using the volume V from the comment above, use:

volshow(V);

There's a lot of rendering options. For example, I frequently prefer using a MIP's on a black background. E.g. try:

volshow(randn(100, 100, 100), 'Renderer', 'MaximumIntensityProjection', 'BackgroundColor', [0, 0, 0]);

It's tricker to visualize volume data if you have RGB voxels but there are some FEX options out there.