[MINC-users] classify_clean

[Paul Rasser]

Dear all,

I'm looking to use classify_clean to classify volumes in native space and was hoping for suggestions/concerns with respect to using it in the following way:

#find nl transformation
nlfit_smr subj.mnc nl.xfm -model colin27_t1_tal_lin 

#invert transformation
xfminvert nl.xfm  nl_inv.xfm

#invert .tag files to subject's native space
transform_tags ~/ntags_1000_prob_90_nobg.tag nl_inv.xfm ntags_1000_prob_90_nobg.tag 
transform_tags ~/ntags_1000_bg.tag nl_inv.xfm ntags_1000_bg.tag

#apply classfy_clean to subject in native space 
classify_clean -clean_tags subj.mnc subj_seg.mnc 

Also, is the best reference for classify_clean and nlfit_smr:

Zijdenbos, A. P., Forghani, R. and Evans, A. C. (2002) Automatic  "pipeline" analysis of 3-D MRI data for clinical trials: application to multiple sclerosis. IEEE Trans Med Imaging 21, 1280-1291?

Thanks for any help,

Paul