3D image alignment in a stack

Question

Irene Fernandez Ugidos 2021-12-16

0
链接

此问题的直接链接

https://ww2.mathworks.cn/matlabcentral/answers/1612600-3d-image-alignment-in-a-stack

评论： Irene Fernandez Ugidos 2021-12-22

采纳的回答： Matt J

在 MATLAB Online 中打开

Hi,

I have a stack of images in a 3D matrix (128x128x500) that I want to align.

I tried:

tiff_stack3=imregister(tiff_stack2,tiff_stack2(:,:,1),'translation','RegularStepGradientDescent','MeanSquares');
sliceViewer(tiff_stack3)

where tiff_stack2 is the matrix that I want to align.

However, Matlab dropped me an error like this:

Error using imregtform>parseInputs (line 268)

The value of 'OptimConfig' is invalid. Invalid optimizer configuration object specified.

Error in imregtform (line 124)

parsedInputs = parseInputs(varargin{:});

Error in imregister (line 119)

tform = imregtform(varargin{:});

Error in Diawork3d (line 19)

tiff_stack3=imregister(tiff_stack2,tiff_stack2(:,:,1:3),'translation','RegularStepGradientDescent','MeanSquares');

Does anyone have any clue about how to align a stack of images using a code? Thank you

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Answer 1

Matt J 2021-12-16

0
链接

此回答的直接链接

https://ww2.mathworks.cn/matlabcentral/answers/1612600-3d-image-alignment-in-a-stack#answer_856825

在 MATLAB Online 中打开

N=size(tiff_stack2,3);
[opt,metric]=imregconfig('monomodal');
for i=1:N
 tiff_stack3{i}=imregister(tiff_stack2(:,:,i),tiff_stack2(:,:,1),'translation',opt,metric);
end
tiff_stack3=cat(3,tiff_stack3{:});

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Irene Fernandez Ugidos 2021-12-22

在 MATLAB Online 中打开

Thank you so much!

It worked beautifully as follows:

N=size(tiff_stack2,3);
[opt,metric]=imregconfig('monomodal');
for i=1:N
 tiff_stack3(:,:,i)=imregister(tiff_stack2(:,:,i),tiff_stack2(:,:,1),'translation',opt,metric);
end
sliceviewer(tiff_stack3)