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

History of AFNI updates  

|
February 03, 2016 12:57PM
Yes, it would be ideal if we could only remove the local white matter signal.

Here is the current command:

afni_proc.py -subj_id ${SUBJID[$n]}_${MRQID[$n]} \
-out_dir $restdir/${SUBJID[$n]}/${MRQID[$n]}/output \
-script $restdir/${SUBJID[$n]}/${MRQID[$n]}/proc_script.sh \
-blocks regress \
-copy_anat $fsdir/mri/aseg+orig \
-anat_follower_ROI aaseg anat $fsdir/SUMA/aparc.a2009s+aseg_rank.nii \
-anat_follower_ROI aeseg epi $fsdir/SUMA/aparc.a2009s+aseg_rank.nii \
-anat_follower_ROI FSvent epi $fsdir/SUMA/${SUBJID[$n]}_${MRQID[$n]}_vent.nii \
-anat_follower_ROI FSWe epi $fsdir/SUMA/${SUBJID[$n]}_${MRQID[$n]}_WM.nii \
-anat_follower_erode FSWe FSvent \
-dsets $restdir/${SUBJID[$n]}/${MRQID[$n]}/rRest_psn+orig \
-tcat_remove_first_trs 4 \
-regress_anaticor \
-regress_anaticor_label FSWe \
-regress_anaticor_radius ${WM} \
-regress_motion_file $restdir/${SUBJID[$n]}/${MRQID[$n]}/Rest_mt.1D \
-regress_bandpass 0.01 0.1 \
-regress_ROI FSWe \
-regress_ROI_PC FSvent 3
Subject Author Posted

afni_proc local white matter regression

krasmussn January 25, 2016 05:24PM

Re: afni_proc local white matter regression

rick reynolds January 26, 2016 10:08AM

Re: afni_proc local white matter regression

krasmussn January 26, 2016 12:26PM

Re: afni_proc local white matter regression

rick reynolds January 26, 2016 04:28PM

Re: afni_proc local white matter regression

krasmussn January 26, 2016 09:32PM

Re: afni_proc local white matter regression

rick reynolds January 27, 2016 04:23PM

Re: afni_proc local white matter regression

krasmussn February 01, 2016 04:17PM

Re: afni_proc local white matter regression

rick reynolds February 01, 2016 08:14PM

Re: afni_proc local white matter regression

krasmussn February 03, 2016 12:57PM

Re: afni_proc local white matter regression

rick reynolds February 05, 2016 08:59AM

Re: afni_proc local white matter regression

krasmussn February 05, 2016 11:19AM