Q: Dear minclist friends After a resounding victory over the install/configuration issues in my previous thread, (thanks to help from the list!) I am on to another newbe issue:

In trying to register a target brain to an atlas, things get offset (see attached picture), I’m thinking due to something I’m leaving out about world coordinates in creating the transform. What am I missing?
http://www.bic.mni.mcgill.ca/pipermail/minc-users/2009-March/002389.html

A: mritoself is supposed to be used to register volumes from the same subjects but with different modalities, so probably this is not what you want.

Also /usr/local/share/mni_autoreg/icbm_template_1.00mm_bet.mnc doesn’t seem to be a valid template. Unless you created it yourself. Standard way of registering to icbm152 template would be like this:

mritotal -model icbm_avg_152_t1_tal_lin 14017_083005_3dvol_bet.mnc 14017_083005_3dvol.xfm