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Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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osman
May 21, 2022 09:33AM
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
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Subject Author Posted

resting-state fmri analysis Attachments

osman May 21, 2022 09:33AM

Re: resting-state fmri analysis

ptaylor May 24, 2022 08:24AM

Re: resting-state fmri analysis

rick reynolds May 24, 2022 10:08AM

Re: resting-state fmri analysis Attachments

osman June 01, 2022 11:17AM

Re: resting-state fmri analysis

ptaylor June 02, 2022 09:34AM