-tlrc_base in afni_proc.py

AFNI Message Board
1

I have used this script below. Does this mean that the datasets were non-linearly transformed to MNI space?

afni_proc.py -subj_id $sb
-blocks despike tshift align tlrc volreg blur mask regress
-copy_anat ${sb}_SurfVol.nii
-anat_follower_ROI aaseg anat aparc.a2009s+aseg.nii
-anat_follower_ROI aeseg epi aparc.a2009s+aseg.nii
-anat_follower_ROI FSvent epi aparc.a2009s+aseg_REN_vent.nii.gz
-anat_follower_ROI FSWe epi aparc.a2009s+aseg_REN_wmat.nii.gz
-anat_follower_erode FSvent FSWe
-dsets ${path_dest}/function/$sb/rest+orig.HEAD
-tcat_remove_first_trs 2
-align_opts_aea -cost lpc+ZZ
-tlrc_base MNI152_2009_template.nii.gz
-tlrc_NL_warp
-volreg_align_to MIN_OUTLIER
-volreg_align_e2a
-blur_size 8
-volreg_tlrc_warp
-regress_motion_per_run
-regress_ROI_PC FSvent 3
-regress_make_corr_vols aeseg FSvent
-regress_anaticor_fast \

2

Hi
Can anyone help me?
Thanks.

3

Yes, these 3 options imply the EPI followed a non-linear
anatomical transformation to align with that 2009 template
in MNI space:

-tlrc_base MNI152_2009_template.nii.gz \
-tlrc_NL_warp \
-volreg_tlrc_warp \
  • rick
4

Hi rick
Thank you.
Rujing