Hi Georgia and company, hope all is well!

I'm having the exact same issue right now - my ICBM white matter template (nifti_MNI_ICBM_DTI_81_WMPM.nii) is in the opposite anterior/posterior orientation as the MNI_T1.nii. Did you ever figure out how to solve this problem a couple years ago? 

I'm also having trouble reslicing the ICBM image to match the T1 image in terms of dimensions. I've consulted the pickatlas developer's manual, and my two images are in different dimensions (see attached image for the matlab output). All that the manual says is: "If you receive a message similar to the one below, then you should reslice your images to the template. Be sure to use nearest neighbor interpolation in your reslice."

Maybe someone has solved these issues? Or figured out a better way to create ROI's using the ICBM white matter atlas than within the WFU-pickatlas? Any and all advice would be appreciated!

Thanks!
Andrew