On 10/27/15 1:09 PM, Morenikeji Adebayo wrote:
Hi Doug,

Thanks for the help!  So, you’re saying that:

  1. By specifying  a volume file (ie: aparc.a2009s+aseg.mgz) when using mri_cor2label, I’ve created volume labels
Correct
  1. The commands ‘funcroi-config' and 'funcroi-table-sess' accept only labels created on the surface.
It takes either. But the analysis you use is a surface-based analysis, so you need a surface-based label.
doug

Is this correct?
Thanks,
Keji

On Oct 27, 2015, at 11:38 AM, Douglas Greve <greve@nmr.mgh.harvard.edu> wrote:

I think the problem is probably that you created the label from a volume whereas funcroi expects the label to come from a surface. Instead of using mri_cor2label and  -label for funcroi-config, try using something like

funcroi-config  -annot aparc.a2009s G_and_S_cingul-Ant -analysis analysis_induc_block.lh -roi roiconfig_ACC_lh
On 10/23/15 1:46 PM, Morenikeji Adebayo wrote:
Hi there,

I ran the following analysis commands:

  1. mri_cor2label --c /autofs/cluster/iaslab/NMASA/mri/recon/$s/mri/aparc.a2009s+aseg.mgz --id 11106 --l /autofs/cluster/iaslab/NMASA/mri/recon/$s/label/labl_ACC_lh.label
  2. funcroi-config -label labl_ACC_lh.label -analysis analysis_induc_block.lh -roi roiconfig_ACC_lh
  3. funcroi-table-sess -analysis analysis_induc_block.lh -contrast contrast_neg_V_neut -roi roiconfig_ACC_lh -sf sublist_All_SHORT_n111 -o sumtable_ACC_lh.dat

After running the 'funcroi-table-sess’ command I got the following 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 of the surface has been changed since the label was created.

It seems that the problem might be that the command is using my participant (in this case, nmasa_001) as the source subject  BUT it’s using fsaverage as the target subject. I want the target subject to be my participant as well (not fsaverage).

Is there a way that I can specify the target subjects? Or is there a more efficient way do what I’m trying to do (ie: 1. generate labels for each participant based on their aparc+aseg file and 2. calculate the mean contrast signal from each ROI for each participant).

Thanks,
Keji


--- Morenikeji Adebayo Clinical Research Coordinator Department of Psychiatric Neuroscience
Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu
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--- Morenikeji Adebayo Clinical Research Coordinator Department of Psychiatric Neuroscience
Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu
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