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April 14, 2022 11:11AM
Thank you!

I was able to get the first answer (what part of the ROI belongs to this and that atlas area) bu using whoami with -bmask or -omask, even if the output is not very machine readable.
Intersection of ROI (all non-zero values) with atlas ARM (sb3):
   31.0 % overlap with CR_area_24, code 506
   29.7 % overlap with CR_rostral_dlPFC
[CR_rostral_dorsolateral_prefrontal_cortex], code 559
   12.1 % overlap with CR_area_8B, code 555
   9.9  % overlap with CR_SMA/preSMA
[CR_medial_supplementary_motor_areas], code 587
   4.2  % overlap with CR_MCC
[CR_midcingulate_cortex], code 511
   3.2  % overlap with CR_rostral_vlPFC
[CR_rostral_ventrolateral_prefrontal_cortex], code 565
   1.3  % overlap with CR_area_32, code 504
   0.1  % overlap with CR_area_10
[CR_frontal_pole], code 518
I can't find a way though to do the opposite, i.e. for each atlas area that intersects with the ROI, what percentage of that atlas area is covered by the ROI. Can this be done with whereami?

Also am I right that there is no way to limit this to specific subbricks of a multi-brick atlas like ARM?

Thank you for telling me a BrikLoad(), I found an old copy online and I'll experiment with it in case I decide to go the Matlab way after all.
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



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