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help > RE: ROIs for fALFF Analyses
May 5, 2023 10:05 AM | Alfonso Nieto-Castanon - Boston University
RE: ROIs for fALFF Analyses
Hi Amy,
By default CONN will break down a mask file into sets of contiguous clusters when using the 'import values' option (and there are a few non-contiguous voxels in that mask file). To avoid this simply create a LAngCombbin.txt text file with a single line (listing the label for this combined ROI) so that CONN will correctly interpret this file as a single-ROI atlas file instead of as a mask file (just to clarify, in CONN an "atlas" file identifies possible multiple regions with different numbers/indexes -e.g. 1 to N- in each voxel, while a "mask" file identifies possible multiple regions by different non-contiguous voxels in the mask).
Best
Alfonso
Originally posted by Amy Roy:
By default CONN will break down a mask file into sets of contiguous clusters when using the 'import values' option (and there are a few non-contiguous voxels in that mask file). To avoid this simply create a LAngCombbin.txt text file with a single line (listing the label for this combined ROI) so that CONN will correctly interpret this file as a single-ROI atlas file instead of as a mask file (just to clarify, in CONN an "atlas" file identifies possible multiple regions with different numbers/indexes -e.g. 1 to N- in each voxel, while a "mask" file identifies possible multiple regions by different non-contiguous voxels in the mask).
Best
Alfonso
Originally posted by Amy Roy:
I created a binary mask by combining two
Harvard-Oxford cortical masks to extract values for fALFF analyses
(see attached). When I look at the new masks in fsleyes, they are
binarized as intended (mask = 1, all other voxels = 0). However,
when I go to into CONN after running the fALFF analysis and
"Import Values" and choose one of these ROI masks, it outputs data
for 3 clusters. I only combined two masks to make the single mask
so this makes no sense at all. I cannot figure out what 3 clusters
CONN is "seeing". IAnyone have this happen to them? Any thoughts???
I have recreated the mask using SPM instead of fslmaths and I get
the same result.
Thank you
Amy
Thank you
Amy
Threaded View
| Title | Author | Date |
|---|---|---|
| Amy Roy | Apr 29, 2023 | |
| Alfonso Nieto-Castanon | May 5, 2023 | |
| Amy Roy | Oct 16, 2023 | |