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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April 15, 2022 11:50PM
Hi, Pawel-

I see you are selecting "ARM Level 3" in your selection, but the parenthetical is "(sb0)", which means "sub-brick 0". Did you splice the dataset?

When I run:
whereami -atlas 'ARM' -omask Clust_mask_0001+tlrc > asdf
.... with the data you provided, this is what I get for sub-brick 2 (sb2) information, which corresponds to Level 3 (because subbricks are zero-based counting):
Intersection of ROI (valued 1) with atlas ARM (sb2):
   45.2 % overlap with CR_dlPFC
[CR_dorsolateral_prefrontal_cortex], code 554
   34.8 % overlap with CR_ACC
[CR_anterior_cingulate_cortex], code 503
   11.1 % overlap with CR_SMA/preSMA
[CR_medial_supplementary_motor_areas], code 587
   4.6  % overlap with CR_MCC
[CR_midcingulate_cortex], code 511
   3.1  % overlap with CR_vlPFC
[CR_ventrolateral_prefrontal_cortex], code 564
   0.1  % overlap with CR_med_OFC
[CR_medial_orbital_frontal_cortex], code 517
   -----
   98.9 % of cluster accounted for.
This whereami output seems consistent with what you did in Matlab.

So, perhaps the question is what happened to the ARM dataset before you ran whereami?

--pt
Subject Author Posted

HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 13, 2022 08:33PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 14, 2022 09:08AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 14, 2022 11:11AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 14, 2022 11:17AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 14, 2022 11:23AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 14, 2022 01:50PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 14, 2022 01:56PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 14, 2022 02:07PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 14, 2022 02:32PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 14, 2022 03:51PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 14, 2022 04:09PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Daniel Glen April 15, 2022 10:19PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 15, 2022 11:01PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 15, 2022 11:50PM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 16, 2022 01:14AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

ptaylor April 16, 2022 07:38AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Pawel April 16, 2022 11:22AM

Re: HEAD/BRIK into Matlab (or how to check ROIs against atlas)

Daniel Glen April 17, 2022 10:43PM