Hi Bruce,
Thanks for the quick response. I got lost with the mri_binarize step, could you please explain to me how to find the value for the '--match' for different structures related to the aparc+aseg.mgz file?
Many thanks, Tomer
Hi Tomer
if you binarize the aparc+aseg.mgz with mri_binarize that should be pretty close. Do you need it in the functional geometry? If so, you can use mri_vol2vol to convert it (with a register.dat created by bbregister)
cheers Bruce
On Sat, 7 Apr 2012, Tomer Livne wrote:
Hi, I'll appreciate some help with the following issue. I need to define an ROI in a whole brain volume to be used as a mask in PyMVPA. That means having a whole brain .nii file with '1' within the ROI and '0' in every other voxel. Is there a way to define a functional ROI in a whole brain volume, in a similar way to what I get when running funcroi with an annotation from aparc for a specific hemi? Or alternatively, is there a way to convert the aparc based ROI for a single hemi surface into a whole brain volume? Best, Tomer