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June 07, 2022 03:20AM
Hello!

I've been trying to pre-process some pilot data from a Hariri faces task (alternating blocks of shapes and faces).

I've used the following to generate a script:
module load afni/21.1.07
module load anaconda/3.8
-----------------------------------------
afni_proc.py -blocks despike tshift align tlrc volreg blur mask scale regress -copy_anat t1.nii.gz -anat_has_skull yes -dsets hariri.nii.gz -tcat_remove_first_trs 2 -align_opts_aea -cost nmi -skullstrip_opts -push_to_edge -tlrc_base MNI152_T1_2009c+tlrc -tlrc_NL_warp -volreg_align_to MIN_OUTLIER -volreg_align_e2a -volreg_tlrc_warp -mask_epi_anat yes -mask_segment_anat yes -mask_segment_erode yes -blur_size 6 -blur_in_mask yes -regress_bandpass 0.01 0.1 -regress_ROI WMe CSF -regress_stim_times stim_t_shapes stim_t_faces -regress_stim_labels shapes faces -regress_motion_per_run -regress_censor_motion 0.3 -regress_censor_outliers 0.05 -regress_apply_mot_types demean deriv -regress_3dD_stop -regress_reml_exec -regress_compute_fitts -regress_make_ideal_sum sum_ideal.1D -regress_est_blur_epits -regress_est_blur_errts -regress_run_clustsim no -html_review_style pythonic

I've also removed the -tzero 0 part and added the following to the 3dTshift bit:
-TR 2.0s -tpattern seqminus

When checking the QC report, I noticed that there are only speckles in the vstat image (attached). The subject didn't move much (only volumes 2 and 3 were censored), they didn't fall asleep and they did the task correctly. Therefore, I expected to see something substantial in the visual areas, but alas..

I've also attached an image of the regressors and the warning that I got.

I'm not exactly sure what I'm doing wrong, so any help would be highly appreciated!

Cheers,
Misho


Subject Author Posted

Speckles in vstat - Hariri faces task Attachments

misho_dimitrov June 07, 2022 03:20AM

Re: Speckles in vstat - Hariri faces task

rick reynolds June 07, 2022 09:37AM

Re: Speckles in vstat - Hariri faces task

misho_dimitrov June 08, 2022 03:26AM

Re: Speckles in vstat - Hariri faces task

misho_dimitrov June 08, 2022 05:51AM

Re: Speckles in vstat - Hariri faces task

rick reynolds June 08, 2022 02:31PM

Re: Speckles in vstat - Hariri faces task

ptaylor June 08, 2022 03:11PM

Re: Speckles in vstat - Hariri faces task

misho_dimitrov June 13, 2022 10:11AM



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