Small rounding errors can cause this problem - as often the dimensions in the images themselves are slightly different. What I would do is take one example image of the size that you want (83 x 120 x 128) and then use this as the reference image instead of using the applyisoxfm command. That is:

That will then use the dimensions of your reference (here I've called it "SelectedRef.nii" but you can call it whatever you like) to determine the number of voxels and the voxel size in mm.

On 28 Sep 2018, at 15:51, xuyun wen <[log in to unmask]> wrote:

Hi, All,

I wanted to resample our T2 image, whose dimensions are 208 x 300 x 320 and voxel size is 0.8 x 0.8 x 0.8mm^3. I used the following command: flirt -in T2Image.nii -ref T2Images.nii -o ResampledT2Image -applyisoxfm 2. Based on these parameters, all resampled T2 images should have the same dimensions: 83 x 120 x 128. Strangely, the dimensions of some resampled images are 83 x 119 x 128. Is there a better way to do this?

Thanks all.

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