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  

|
April 14, 2022 04:09PM
I know, but the ROI file I am using (Clust_mask_0001+tlrc) contains only one ROI, it was made by [Write]'ing one specific cluster from GUI's clustering report.
Either way, if I use the ordered mask (-omask) mode on this single-ROI file, or ordered mask on a multi-ROI file, I get the same numbers on this ROI and regions: 41.8% and 32.3%, vs. 45.2% and 34.8% from doing it step by step or in Matlab

whereami -atlas 'ARM Level 3' -omask Clust_mask_0001+tlrc
++ Input coordinates orientation set by default rules to RAI
++ In ordered mode ...
++ Have 2 unique values of:
   0   1
++ Skipping unique value of 0
++ ========================================================================
++ Processing unique value of 1
++    5519 voxels in ROI
++    43959 voxels in atlas-resampled mask
Intersection of ROI (valued 1) with atlas ARM Level 3 (sb0):
   41.8 % overlap with CR_dlPFC
[CR_dorsolateral_prefrontal_cortex], code 554
   32.3 % overlap with CR_ACC
[CR_anterior_cingulate_cortex], code 503
[...]
   91.5 % of cluster accounted for.


whereami -atlas 'ARM Level 3' -omask Clust_mask+tlrc
++ Input coordinates orientation set by default rules to RAI
++ In ordered mode ...
++ Have 4 unique values of:
   0   1   2   3
++ Skipping unique value of 0
++ ========================================================================
++ Processing unique value of 1
++    5519 voxels in ROI
++    43959 voxels in atlas-resampled mask
Intersection of ROI (valued 1) with atlas ARM Level 3 (sb0):
   41.8 % overlap with CR_dlPFC
[CR_dorsolateral_prefrontal_cortex], code 554
   32.3 % overlap with CR_ACC
[CR_anterior_cingulate_cortex], code 503
 [...]
   -----
   91.5 % of cluster accounted for.
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