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
[i]Originally posted by Alfonso Nieto-Castanon:[/i][quote][color=#000000]Hi Howard,[/color]
[color=#000000]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. [/color]
[color=#000000]Hope this helps[/color]
[color=#000000]Alfonso[/color]
[i]Originally posted by Howard Morgan:[/i][quote]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[/quote][/quote]
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
[i]Originally posted by Alfonso Nieto-Castanon:[/i][quote][color=#000000]Hi Howard,[/color]
[color=#000000]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. [/color]
[color=#000000]Hope this helps[/color]
[color=#000000]Alfonso[/color]
[i]Originally posted by Howard Morgan:[/i][quote]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[/quote][/quote]