Hello there:
i am tring to do the resting-state fmri analysis. i did the preprocessing step using afni_proc.py then i did the first level analysis to detect the DMN network but when i underlay the resulted anatomic dataset and overlay the resulted the correlation maps i get a correlatin outside the brain borders(The areas outlined in blue).
Here is the afni proc py used in the preprocessing:
#!/bin/tcsh
afni_proc.py \
-subj_id s01 \
-blocks despike tshift align tlrc volreg blur mask \
scale regress \
-copy_anat anat_shft+orig \
-dsets func+orig.HEAD \
-tcat_remove_first_trs 2 \
-align_opts_aea -cost lpc+ZZ -giant_move \
-tlrc_base TT_N27+tlrc \
-tlrc_NL_warp \
-volreg_align_to MIN_OUTLIER \
-volreg_align_e2a \
-volreg_tlrc_warp \
-volreg_warp_dxyz 2.5 \
-blur_size 4 \
-mask_segment_anat yes \
-mask_segment_erode yes \
-mask_import Tvent template_ventricle_2.5mm+tlrc \
-mask_intersect Svent CSFe Tvent \
-mask_epi_anat yes \
-regress_motion_per_run \
-regress_ROI_PC Svent 3 \
-regress_ROI_PC_per_run Svent \
-regress_make_corr_vols WMe Svent \
-regress_anaticor_fast \
-regress_censor_motion 0.2 \
-regress_censor_outliers 0.05 \
-regress_apply_mot_types demean deriv \
-regress_est_blur_epits \
-regress_est_blur_errts \
-regress_run_clustsim yes
