Hi Adam, there is an example of this on the FreeSurfer wiki. Search for FSGD and look for the One Group, One Covariate in the FSGD Example page.
doug Adam Nitenson wrote: > Hi Doug, > > Ok this makes sense, I just am unsure as to how I should create my > contrast (.mtx) file. If I have 1 class and 3 levels of 1 continuous > variable (3 allele loads: 0,1,2) how would I structure the contrast file > to answer the question, "Is there a significant linear relationship > between allele load and functional activation/deactivation? > > My fsgd file will probably look something like this: > > GroupDescriptorFile 1 > Title Alleles > Class Patient > Variables AlleleLoad > Input Patient1 Patient 1 > Input Patient2 Patient 2 > Input Patient3 Patient 3 > > (etc) > > Thanks, > > Adam > > > >> This is a standard type of group analysis using a single covariate. You >> can set up an FSGD file specifying the groups as classes and using >> allele load as a continuous variable. If you're not interested in the >> differences between the slopes, then use a DOSS model when you run >> mri_glmfit. Search for FSGD on the wiki for more info. >> >> doug >> >> Adam Nitenson wrote: >> >>> Hi all, >>> >>> So far I have only been using Freesurfer analyses to look at the >>> functional activation for individuals, single groups, and subtractions >>> between 2 groups. We now want to investigate a possible linear >>> relationship between allele load (Three levels: 0,1,2) and functional >>> activation. Is there a way to create a brainmap using glmfit or some >>> other command that displays voxels that display a significant >>> regression of genotype (such as red for positive / blue for negative >>> linear relationship)? Basically, it would be a map that shows >>> significant "r" instead of significant difference. >>> >>> Thanks, >>> >>> >>> Adam Nitenson, B.S. >>> Brain Genomics Lab >>> Massachusetts General Hospital >>> _______________________________________________ >>> 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> >> >> >> > > > Adam Nitenson, B.S. > Brain Genomics Lab > Massachusetts General Hospital > > > -- 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ 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.
