help > RE: discrepancy between the results of MRIcron V2012 and V2019
Sep 2, 2020  03:09 AM | Chris Rorden
RE: discrepancy between the results of MRIcron V2012 and V2019
1. There is not a one-to-one correspondence between the voxels in one image and the other. Therefore, the choice of which image to warp and the choice of interpolation method (nearest neighbor, linear, sinc, etc) will impact your results. This explains why tools like FSL and SPM require image masks to have a perfect correspondence to the image they are applied to. You can see this difference by choosing different "intrep" reslicing with SPM
  https://github.com/rordenlab/spmScripts/blob/master/nii_reslice_target.m

2. Since your image is not orthogonal to the image plane, it will load a little differently as a background image depending on whether you set the Preferences to reorient the images when reloading, which will reslice the data.


fslhd threshZ4V_5VD-qzhoActiv.nii
...
dim1 157
dim2 189
dim3 136
sform_code 2
sto_xyz:1 -1.000000 -0.000159 0.000962 77.945053
sto_xyz:2 -0.000160 0.999999 -0.001155 -111.876495
sto_xyz:3 0.000962 0.001155 0.999999 -50.143166
sto_xyz:4 0.000000 0.000000 0.000000 1.000000

fslhd natbrainlab.nii
...
dim1 182
dim2 218
dim3 182
sto_xyz:1 -1.000000 0.000000 0.000000 90.000000
sto_xyz:2 0.000000 1.000000 0.000000 -126.000000
sto_xyz:3 0.000000 0.000000 1.000000 -72.000000

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TitleAuthorDate
Ardalan Aarabi Sep 2, 2020
RE: discrepancy between the results of MRIcron V2012 and V2019
Chris Rorden Sep 2, 2020
Ardalan Aarabi Sep 2, 2020
Chris Rorden Sep 2, 2020