applying fslreorient2std on segmentation map

[tenres]

Hi John,

Thanks for all your work on this software. I have a brain image series and a corresponding binary segmentation image. I understand that fslreorient2std is a basic operation applied to images to standardize the orientation. How can I apply this to the corresponding binary segmentation image? I see that the function allows to write the transformation matrix as output. How do I use this to transform the segmentation map as well?

Thanks for your help!