The conform option resamples the data into 256^3, 1mm3 space that is aligned with the scanner (not voxel space). This means that if the person's head is rotated sharply in the scanner, then it can look a little funny. Check the corronal view.

On 9/3/2019 6:56 AM, Rovai Antonin wrote:

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Hello again


I have the following issue when running mri_convert. When using the option -conform option (as in the reconall pipeline), the sag slices seems to be shifted at some point (see attached pictures). What is happening? 

By the way the option description is not super clear, could you please give some extra details?

Best

Antonin

Hôpital Erasme

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