I have been experimenting with the nonlinear warping in AFNI. I noticed that when using 3dNwarpApply, the program does not currently update the space/view of a dataset to fit the warp. For example, if I am doing something like the code below, applying a nonlinear warp to a stats file, the output ends up being in +orig instead of +tlrc. I found that using 3drefit can solve the problem, but wasn't sure if this was intentional functionality.
3dAllineate -base TT_N27+tlrc -input anat_final.4847+orig. -nwarp poly5 -cost ls -nwarp_save nwarp_anat3d2MNI -prefix anat3d_MNI
3dNwarpApply -nwarp nwarp_anat3d2MNI+tlrc. -source stats.tb4847+orig. -prefix stats.mni
Thanks for all of the great software!
Edited 2 time(s). Last edit at 09/18/2012 05:14PM by Peter Molfese.
