Fantastic. I really appreciate all your help!! -----Original Message----- From: Nick Schmansky [mailto:[EMAIL PROTECTED] Sent: Tuesday, June 21, 2005 11:00 PM To: Fornito, Alexander Cc: Freesurfer Mailing List; Bruce Fischl Subject: RE: [Freesurfer] mris_glm
Alex, Attached is the make_average_surface script. Copy it to the freesurfer/bin directory, and be sure to make it executable (run 'chmod 755 make_average_surface' in the freesurfer/bin directory). Type 'make_average_surface' to get help. Basically, just the subject names are required. By default, a 'subject' named 'average' will be created from your set of subjects (a name instead of 'average' can be specified on the command line). Nick ps. I am working on the mris_surface seg-fault problem using the rh.orig file that you sent. On Tue, 2005-06-21 at 08:23 -0400, Bruce Fischl wrote: > Hi Alex, > > you're better off using the make_average_surfaces.csh script to make an > average of your subjects. Nick: can you send Alex a copy? > > thanks, > Bruce > On Tue, 21 Jun > 2005, Fornito, Alexander wrote: > > > Def. sounds worth doing then! I'll give it a try. > > My other question is, where can I get my hands on the average7? It's > > used as the target in the mris_glm examples, but I haven't been able to > > find the actual average7 surface in any of the freesurfer directories. > > Am I missing something? > > Thanks again, > > Alex > > > > -----Original Message----- > > From: Doug Greve [mailto:[EMAIL PROTECTED] > > Sent: Tuesday, June 21, 2005 4:11 PM > > To: Fornito, Alexander > > Cc: freesurfer@nmr.mgh.harvard.edu > > Subject: Re: [Freesurfer] mris_glm > > > > > > You can run with just the design matrix, but you won't be able to use > > the cool fsgdf stuff in tksurfer (Load->FSGDF). The fsgdf is a way to > > specify how to build the des mtx. The fsgdf keeps track of what the > > regressors mean (eg, Age, Class, IQ, etc). When you save the > > preprocessed data with --y, you'll see that there will be an fsgdf > > file saved with it. Load this in tksurfer, click on a point, and you > > will be able to make a scatter plot of, say, thickness vs age, with > > each class (eg, Male, Female) having a different color dot in the > > scatter plot. When you mouse-over the dot, it tells you the subject > > name. Click on a new point and you'll see the scatter plot for that > > point. If you use --xmat, you can save the design matrix (in matlab-4 > > format). > > > > doug > > > > > > On Tue, 21 Jun 2005, Fornito, Alexander wrote: > > > >> Hi, > >> > >> I was seeking some clarification re: the relationship between the > > fsgdf > >> and design matrix file for use with mris_glm. It seems to me that the > >> two contain very similar info, the examples in the -help don't use the > >> fsdf at all. Is it necessary to create one, or can you just run an > >> analysis with the desmtx? > >> > >> Thanks, > >> > >> Alex > >> > >> > >> > >> Alexander Fornito > >> > >> M.psych (Clin. Neuro.)/PhD candidate > >> > >> Melbourne Neuropsychiatry Centre and Department of Psychology > >> > >> The University of Melbourne > >> > >> [EMAIL PROTECTED] > >> > >> > >> > >> > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
