Thanks, Doug for that quick response! Does mask.mgh varies between different set of subjects and (or) different set of contrasts for a given hemisphere? Since fsavearge doesnt change, the mask that is used for statistical comparisons should change neither unless I change --trgsubject to some other. Am i right?
thanks regards VM On Thu, Dec 22, 2016 at 11:32 AM, Douglas N Greve <gr...@nmr.mgh.harvard.edu > wrote: > > > On 12/22/2016 01:33 PM, neuroimage analyst wrote: > > Hi, > > > > I am just curious whether the mask.mgh file returned in glmdir folder > > created from lh.cortex.label? > In part. It will also include any voxels that have 0 values in any of > the inputs (--y) > > > > If so, how can I create my own surface mask from the label file? > > (mri_label2vol and mri_vol2surf ?) > mri_label2label with the --mask option > > > > > > Second: How can I compare the subcortical volumes between the 2 groups > > using glm tools in freesurfer? Specifically, how do I call > > mris_preproc and mri_glmfit? > Run asegstats2table to create a table, then run mri_glmfit as before but > with --table instead of --y > > > > I appreciate your response. > > > > Thank you > > > > Regards > > > > --VM > > > > > > _______________________________________________ > > 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. > >
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