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help > RE: Question about ROIs
Feb 9, 2018 03:02 PM | Greg Overbeek - University of Alabama at Birmingham
RE: Question about ROIs
Hello, I too would like to be able to
look at each ROI separately in another program. I have tried to
figure out a way to do this for awhile now without any success.
Help would be appreciated.
Best,
Greg
Originally posted by Patrick McConnell:
Best,
Greg
Originally posted by Patrick McConnell:
Hi -
I would like to look at each atlas ROI separately in another program. Is there a convenient way to write out the atlas.nii into its component ROIs? Or perhaps download these from online somewhere?
Best,
Patrick
Originally posted by Alfonso Nieto-Castanon:
I would like to look at each atlas ROI separately in another program. Is there a convenient way to write out the atlas.nii into its component ROIs? Or perhaps download these from online somewhere?
Best,
Patrick
Originally posted by Alfonso Nieto-Castanon:
Hi
Howard,
Not really, there is no stablished standard for a set of ROIs that would optimally summarize the entire brain. CONN uses by default a combination of the Harvard-Oxford atlas and the AAL atlas (see the atlas.info file in the conn/rois directory for additional info), which is a perfectly reasonable starting point, but there are of course many alternative ways to parcellate the brain into meaningful ROIs. CONN supports a very wide range of possible ways of defining your ROIs. You may find, for example, a few alternative atlases in the conn/utils/otherrois/ folder (e.g. Brodmann areas, or more agnostic large-voxel parcellations), or of course you could also define your own (perhaps better tailored to the regions that you may be most interested in). CONN also supports subject-specific ROIs so you could also define your regions of interest functionally (e.g. using localizer contrasts) or use other automatic parcellation methods (e.g. freesurfer), just to name a few alternative approaches.
Hope this helps
Alfonso
Originally posted by Howard Morgan:
Not really, there is no stablished standard for a set of ROIs that would optimally summarize the entire brain. CONN uses by default a combination of the Harvard-Oxford atlas and the AAL atlas (see the atlas.info file in the conn/rois directory for additional info), which is a perfectly reasonable starting point, but there are of course many alternative ways to parcellate the brain into meaningful ROIs. CONN supports a very wide range of possible ways of defining your ROIs. You may find, for example, a few alternative atlases in the conn/utils/otherrois/ folder (e.g. Brodmann areas, or more agnostic large-voxel parcellations), or of course you could also define your own (perhaps better tailored to the regions that you may be most interested in). CONN also supports subject-specific ROIs so you could also define your regions of interest functionally (e.g. using localizer contrasts) or use other automatic parcellation methods (e.g. freesurfer), just to name a few alternative approaches.
Hope this helps
Alfonso
Originally posted by Howard Morgan:
Hi Alfonso,
I was wondering: what does Conn use to establish the ROIs?
Are the 136 ROIs used in first-level and second-level-analysis of Conn the standard ROIs that all MNI templates use?
Thank you,
Howard
I was wondering: what does Conn use to establish the ROIs?
Are the 136 ROIs used in first-level and second-level-analysis of Conn the standard ROIs that all MNI templates use?
Thank you,
Howard
Threaded View
| Title | Author | Date |
|---|---|---|
| Howard Morgan | Mar 22, 2016 | |
| lector737 | Sep 2, 2021 | |
| Alfonso Nieto-Castanon | Mar 23, 2016 | |
| Patrick McConnell | Jul 25, 2017 | |
| Greg Overbeek | Feb 9, 2018 | |