Hi. I am writing this email to ask if there is any way to do functional ROI analysis from both hemispheres at the same time, but not separately.

My research question is to investigate visual hierarchy system under certain fMRI tasks using surface-based analysis. I am not interested in differences between hemispheres.

There was the same question previously (MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg18681.html) but the answer didn't help.

What I understand from the post is that I can do ROI analysis on both hemispheres just like I do it on one hemisphere. But that didn't work for me.

If I can't do ROI analysis on both hemispheres at once, can I get mean beta values from ROI on each hemisphere, add them together and divide by 2 to get the average beta value?

This is what I have done:

# merge lh and rh labels

mri_mergelabels -i lh.wang2015atlas.V1d.label -i lh.wang2015atlas.V1v.label -i lh.wang2015atlas.V2d.label -i lh.wang2015atlas.V2v.label -i rh.wang2015atlas.V1d.label -i rh.wang2015atlas.V1v.label -i rh.wang2015atlas.V2d.label -i rh.wang2015atlas.V2v.label -o lhrh.wang2015atlas.V1d+v+V2d+v.label

# GL is the project name.

funcroi-config -label lhrh.wang2015atlas.V1d+v+V2d+v.label -analysis GLanalysis.rh -roi rhlh.wang2015atlas.V1d+v+V2d+v.roicfg

funcroi-sess -sf GLsublist -roi rhlh.wang2015atlas.V1d+v+V2d+v.roicfg

funcroi-table-sess command showed an error

"ERROR: there is a vertex in the label that cannot be matched to the surface. This usually occurs when the label and surface are from different subjects or hemispheres or the surface has been changed since the label was created."

The command showed no error with -anlysis GLanlaysis.lh option.

My original plan was to compare results between -anlysis GLanalysis.lh and -anlysis GLanalysis.rh to see if they are the same.

In addition, since the atlas is surface-based, I assume I cannot use -anlysis GLanalysis.mni305. 

“You must specify an analysis to use. The analysis (-analysis) space must match that of the anatomical ROI space. Ie, if the anatomical ROI is defined by a surface annotation, then the analysis must be a surface-based analysis. If the anatomical ROI is defined in the volume using a segmentation or a volume label, then the analysis must be volume-based (ie, mni305 or native).” from MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/funcroi-config

The attached files are the output from funcroi-sess with different hemispheres options.

What should I do for doing ROI analysis from the both hemispheres at once?

Thank you in advance.

Kind Regards,