Hello,
I have been given some data and within the afni analysis folder there are this file outlining the onset and duration of a stimulus presented in the first 6 runs (there are 9 runs in total):
45:30 103:33 166:36 238:39 309:33 382:39
45:30 103:33 166:36 238:39 309:33 382:39
38:30 96:33 159:36 231:39 302:33 375:39
45:30 103:33 166:36 238:39 309:33 382:39
45:30 103:33 166:36 238:39 309:33 382:39
45:30 103:33 166:36 238:39 309:33 382:39
The afni_proc.py (see below) for the data used for the task-regression_block has used -regress stim_types AM1 and dmUBLOCK(0) as the basis function. As far as I can tell, there is no reason for amplitude modulation in this experiment- should another basis function be used instead?
afni_proc.py -subj_id ${subj} \
-dsets ${subj}/afni_folder/f*${subj}_task*.nii.gz \
-blocks despike tshift align tlrc volreg blur mask scale regress \
-copy_anat ${subj}/afni_folder/a*${subj}_T1w.nii.gz \
-align_opts_aea -cost lpc+ZZ \
-tlrc_base MNI152_T1_2009c+tlrc \
-tlrc_NL_warp \
-volreg_align_to MIN_OUTLIER \
-volreg_align_e2a \
-volreg_tlrc_warp \
-volreg_warp_dxyz 2 \
-mask_epi_anat yes \
-blur_in_automask \
-blur_to_fwhm \
-blur_size 4 \
-regress_stim_times ${subj}/afni_folder/B*afni_task*.txt \
-regress_stim_types AM1 \
AM1 AM1 \
AM1 AM1 \
AM1 AM1 \
AM1 AM1 \
AM1 AM1 \
-regress_stim_labels \
stim_on \
rest15_on rest30_on \
stand15_on stand30_on \
step15_on step30_on \
rest_sham stand_sham \
step_sham sham_on \
-regress_local_times \
-regress_basis 'dmUBLOCK(0)' \
-regress_apply_mot_types demean deriv \
-regress_motion_per_run \
-regress_censor_motion 0.5 \
-regress_compute_fitts \
-regress_reml_exec \
-regress_opts_3dD \
-jobs 6 \
-GOFORIT 4 \
-num_glt 19 \
-gltsym 'SYM: +rest30_on -rest15_on' \
-glt_label 1 rest30_vs_rest15 \
-gltsym 'SYM: +stand30_on -stand15_on' \
-glt_label 2 stand30_vs_stand15 \
-gltsym 'SYM: +step30_on -step15_on' \
-glt_label 3 step30_vs_step15 \
-gltsym 'SYM: +stand15_on -rest15_on' \
-glt_label 4 stand_vs_rest15 \
-gltsym 'SYM: +step15_on -rest15_on' \
-glt_label 5 step_vs_rest15 \
-gltsym 'SYM: +step15_on -stand15_on' \
-glt_label 6 step_vs_stand15 \
-gltsym 'SYM: +stand30_on -rest30_on' \
-glt_label 7 stand_vs_rest30 \
-gltsym 'SYM: +step30_on -rest30_on' \
-glt_label 8 step_vs_rest30 \
-gltsym 'SYM: +step30_on -stand30_on' \
-glt_label 9 step_vs_stand30 \
-gltsym 'SYM: +step30_on -stand30_on' \
-glt_label 10 step_vs_stand30 \
-gltsym 'SYM: +stand30_on +stand15_on -rest15_on -rest30_on' \
-glt_label 11 stand_vs_rest_overall \
-gltsym 'SYM: +step30_on +step15_on -rest15_on -rest30_on' \
-glt_label 12 step_vs_rest_overall \
-gltsym 'SYM: +step30_on +step15_on -stand15_on -stand30_on' \
-glt_label 13 step_vs_stand_overall \
-gltsym 'SYM: +rest15_on -rest_sham' \
-glt_label 14 rest15_vs_rest_sham \
-gltsym 'SYM: +stand15_on -stand_sham' \
-glt_label 15 stand15_vs_step_sham \
-gltsym 'SYM: +step30_on -step_sham' \
-glt_label 16 step30_vs_step_sham \
-gltsym 'SYM: +stim_on -sham_on' \
-glt_label 17 stim_vs_sham \
-gltsym 'SYM: +stand_sham -rest_sham' \
-glt_label 18 stand_vs_restSham \
-gltsym 'SYM: +step_sham -rest_sham' \
-glt_label 19 step_vs_restSham \
-regress_est_blur_epits \
-regress_est_blur_errts \
-regress_run_clustsim yes
Cheers,
Gerome