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  

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December 01, 2015 11:51AM
Hi experts,

I would like to make use of the local WM regression from ANATICOR like in example 9b from anfi_proc.py in combination with regression the average eroded CSF like in example 10 for resting state preprocessing - please see below.
1) Does anything speak against this combination?
2) In example 11, it is not local but average WM, right?
3) How much better is the "first 3 principal components of lateral ventricles" method in combination with freesurfer segmentation used in example 11 compared to the eroded mean CSF from example 10 or on what factors does it depend how big the difference is? What is your recommendation regarding my data (high motion sample with ASD including children and adolescents, 10min RS)?

Thanks for any input!
Janina



afni_proc.py
-subj_id ...
-dsets ...
-blocks despike tshift align tlrc volreg mask blur regress
-tcat_remove_first_trs 0
-tlrc_base MNI_avg152T1+tlrc
-volreg_align_e2a
-volreg_tlrc_warp
-regress_anaticor
-blur_size 6.0
-mask_segment_anat yes
-mask_segment_erode yes
-regress_censor_motion 0.3
-regress_censor_outliers 0.3
-regress_bandpass 0.01 0.1
-regress_apply_mot_types demean deriv
-regress_ROI CSFe
-regress_run_clustsim no
-regress_est_blur_errts
Subject Author Posted

afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

janina_aletheia December 01, 2015 11:51AM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

rick reynolds December 01, 2015 09:30PM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

janina_aletheia December 02, 2015 03:40AM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

janina_aletheia December 03, 2015 04:48AM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

rick reynolds December 03, 2015 09:46PM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

janina_aletheia December 04, 2015 08:27AM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

rick reynolds December 08, 2015 09:08PM

Re: afni_proc.py combine ANATICOR with CSF-regression without Freesurfer-segmentation?

janina_aletheia December 09, 2015 09:40AM