If I understand you, you want to do a vertex-wise correlation between thickness and myelin. You can do this with a "per vertex regressor", --pvr input to mri_glmfit, something like
mri_glmfit --y thickness.mgh --pvr myelin.mgh --surf fsaverage lh --C contrats.mtx --o glmdir with contrast.mtx being 0 1 This will set up a model thickness = offset + beta*myelin and then test whether beta=0 doug On 11/18/2015 02:48 AM, Silas wrote: > I've mapped cortical thickness and the myelination data onto the fsaverage, > and also used general linear modelling to investigate the one sample group > mean of myelination data og cortical thickness (not very useful since the > mean thickness or myelination should never be 0) data separately. > I would like to map the correlation between cortical thickness and > myelination onto the fsaverage. I've investigated this statistical > correlation by a vertex wise correlation study in matlab, and it should be > possible to map this onto the fsaverage. Though, I would like to perform this > correlation study entirely in FreeSurfer - in this way I would easily be able > to correlate for multiple comparisons using the standardized pipeline for > FreeSurfer group analysis. > > Best, Silas > > ________________________________________ > 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, November 17, 2015 7:10 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Multimodality analysis in FreeSurfer > > I'm not sure what you mean. You say that you have mapped the thickness > and myelin data into fsaverage space but then need to map the > correlation into fsaverage. Isn't it already there? > > On 11/17/2015 10:33 AM, Silas wrote: >> Dear Freesurfer team, >> >> >> I've scanned a group of subjects and gained structural and myelination >> data. Then, I've used mris_preproc to map the data onto the surface of >> fsaverage (and concatenating the data). I would like to investigate >> the correlation between cortical thickness and myelination by mapping >> this correlation onto the fsaverage (an one sample group mean >> analysis) - is this possible? Do you have an existing guide >> approaching this problem? >> >> >> Thank you! >> >> >> Best, Silas >> >> >> >> _______________________________________________ >> 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
