THIS PAGE HAS BEEN MOVED TO SHAREPOINT!
Please refer to this site/make edits here for the most updated information: https://partnershealthcare.sharepoint.com/sites/LCN/SitePages/Perirhinal-Cortex.aspx
Average perirhinal cortex labels
The labels below have been histologically validated on exvivo samples.
The right average perirhinal cortex label is available for download here: The left average perirhinal cortex label is available for download here:
Using the labels on your data
For internal users
The dev version of freesurfer has a -balabels flag for recon-all which creates perirhinal cortex labels on your subject and Brodmann Area labels as well.
For external users
To map these labels onto your own data you will use the fsaverage subject as well as the mri_label2label command The section below gives the details of commands to load the label file in text editor, tkmedit, and tksurfer
cd $SUBJECTS_DIRcd mri_label2label \ --srcsubject fsaverage \ --srclabel rh.perirhinal.label \ --trgsubject subjid \ --trglabel subjid/label/rh.perirhinal.label \ --hemi rh \ --regmethod surface
To take a look at the newly created label on your subject:
To load the label in tkmedit, first load the subject you want to work on:
tkmedit subjid orig.mgz
Then on the menu bar the top of tkmedit tools window, go to File --> Label --> Load Label --> Browse --> rh.perirhinal.label and hit 'OK' on both windows. The label will be visible now. The label can be edited when the Select Voxels button is chosen. Use the middle mouse button to add to the label. Use the right mouse button to delete from the label. If this was your own subject: make sure you save your edits by going to File --> Label --> Save Label To load the label in tksurfer, first load the subject:
tksurfer subjid rh inflated
On the menu bar at the top of tksurfer tools window, go to File --> Label --> Load Label --> Browse --> rh.perirhinal.label Information on how to edit labels in tksurfer can be found at tksurfer_labeledit
To make the average probabilistic maps, Bruce used mris_spherical_average