AFNI Message Board

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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pshuk
December 05, 2014 08:52AM
Hi Rick,
I also want to include RSFC to calculate ALFF, fALFF. I have my proc.py set up like this. But as I went through the posts here, I think I need to remove bandpass and regress_ROI option from my script. Please let me know, what do you think:
-------------------------
afni_proc.py -subj_id $sub -script $scrpt_file \
-out_dir $out_dir \
-dsets $rest_file \
-copy_anat $T1_file \
-blocks despike tshift align tlrc volreg blur mask regress \
-tcat_remove_first_trs 3 \
-align_opts_aea -cost lpa \
-tlrc_base MNI_avg152T1+tlrc \
-volreg_align_to last \
-volreg_interp -heptic \
-volreg_zpad 4 \
-volreg_align_e2a \
-volreg_tlrc_warp \
-blur_to_fwhm -blur_size 4 \
-mask_apply epi \
-mask_segment_anat yes \
-regress_ROI CSFe \
-regress_anaticor \
-regress_bandpass 0.008 0.1 \
-regress_apply_mot_types demean deriv \
-regress_RSFC \
-regress_run_clustsim no \
-regress_est_blur_errts
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Subject Author Posted

how to run both anaticor and 3dRSFC?

glen_chen March 10, 2014 11:32PM

Re: how to run both anaticor and 3dRSFC?

ptaylor March 12, 2014 10:07AM

Re: how to run both anaticor and 3dRSFC?

rick reynolds March 12, 2014 10:13AM

Re: how to run both anaticor and 3dRSFC?

glen_chen March 12, 2014 02:13PM

Re: how to run both anaticor and 3dRSFC?

rick reynolds March 12, 2014 04:08PM

Re: how to run both anaticor and 3dRSFC?

ptaylor March 13, 2014 08:05AM

Re: how to run both anaticor and 3dRSFC?

glen_chen March 14, 2014 11:00PM

Re: how to run both anaticor and 3dRSFC?

rick reynolds March 13, 2014 08:39AM

Re: how to run both anaticor and 3dRSFC?

pshuk December 05, 2014 08:52AM