If you have two binary masks, you can use mri_mask to compute the voxels that overlap in both
On 09/27/2017 01:48 PM, Yagmur Ozdemir 19 wrote: > Hello Dr. Greve, > > Sorry for the late response; I thought my initial description was enough. > > As far as I understand, the fMRI version of this code would automatically > define an ROI based on cluster-extent based tresholding of functional data > that contains the significant regions. Then loads a selected anatomical > ROI(like a label) for comparison with this functional area, and I am not > entirely sure how this comparison works but at the end outputs, I guess, an > estimation of this area and produces an anatomical+functional "label." The > anatomical label it uses comes from Freesurfer and I found this code in a > website related to Martinos center > (https://martinos.org/mne/stable/index.html) so I wanted to take my chances > for asking about it here. I am basically looking for a way to define ROIs > automatically in freesurfer. > > Best, > Idil > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Tuesday, September 26, 2017 12:53 AM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] generating automatic functional label > > Hi Idil, I'm not going to plow through someone else's code:) If you want > to summarize what it does, I might be able to figure out if we have > something that does it. > > > On 09/25/2017 03:21 PM, Yagmur Ozdemir 19 wrote: >> Hello FreeSurfer developers, >> >> This is a piece of code I came across for producing a functional label >> with using time course estimates from MEG/EEG data, for freesurfer >> use. I am wondering if something similar is available to estimate a >> functional label/region from fMRI data with similar tresholding. >> >> https://martinos.org/mne/stable/auto_examples/inverse/plot_label_from_stc.html#generate-a-functional-label-from-source-estimates >> >> Best, >> Idil >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it is > addressed. If you believe this e-mail was sent to you in error and the e-mail > contains patient information, please contact the Partners Compliance HelpLine > at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
