Hi all,
I am processing a set of resting state images using AFNI version 21.2.04 (‘Nerva’). I am currently running a few versions of proc.py manipulating the nuisance regressors (e.g., motion censoring, outlier censoring, bandpass filtering) to determine a final model to move forward with. I noticed that the polort value is consistently set to 4 across models, regardless of whether bandpass filtering is performed. In the 3dTproject documentation, I saw that it is not recommended to use a value greater than 2 when bandpassing out lower frequencies.
Is it OK to use a polort value of 4 while bandpassing (0.01-0.1 Hz)? Or would you recommend lowering this value in the models where bandpassing is included (e.g., -regess_polort 2 -regress_bandpass 0.01 0.1)?
Thank you,
Jenna
afni_proc.py \
-subj_id ${sid} -script proc.${sid} -scr_overwrite -out_dir ${sid}.results \
-blocks despike tshift align tlrc volreg blur mask scale \
regress \
-radial_correlate_blocks tcat volreg \
-copy_anat ${ss_dir}/anatSS.${sid}.nii \
-anat_has_skull no \
-anat_follower anat_w_skull anat ${ss_dir}/anatU.${sid}.nii \
-anat_follower_ROI aaseg anat ${fs_dir}/aparc.a2009s+aseg.nii.gz \
-anat_follower_ROI aeseg epi ${fs_dir}/aparc.a2009s+aseg.nii.gz \
-anat_follower_ROI FSvent epi ${fs_dir}/fs_ap_latvent.nii.gz \
-anat_follower_ROI FSWe epi ${fs_dir}/fs_ap_wm.nii.gz \
-anat_follower_erode FSvent FSWe \
-dsets ${raw_epi} \
-tcat_remove_first_trs 4 \
-tshift_opts_ts -tpattern ${tpattern} \
-align_opts_aea -cost lpc+ZZ -giant_move -check_flip \
-tlrc_base MNI152_2009_template_SSW.nii.gz \
-tlrc_NL_warp \
-tlrc_NL_warped_dsets ${ss_dir}/anatQQ.${sid}.nii ${ss_dir}/anatQQ.${sid}.aff12.1D \
${ss_dir}/anatQQ.${sid}_WARP.nii \
-volreg_align_to MIN_OUTLIER \
-volreg_align_e2a \
-volreg_tlrc_warp \
-blur_size 4 \
-mask_epi_anat yes \
-regress_motion_per_run \
-regress_ROI_PC FSvent 3 \
-regress_ROI_PC_per_run FSvent \
-regress_make_corr_vols aeseg FSvent \
-regress_anaticor_fast \
-regress_anaticor_label FSWe \
-regress_censor_motion 0.3 \
-regress_censor_outliers 0.1 \
-regress_bandpass 0.01 0.1 \
-regress_apply_mot_types demean deriv \
-regress_est_blur_epits \
-regress_est_blur_errts \
-html_review_style pythonic