Hi Keyma, I'll leave this for Doug (or Brian).
Bruce On Fri, 28 Jan 2005, Keyma Prince wrote: > Thanks, > > I also ran mris_glm for thickness differences based on age of the subjects > with the following command and got the following output. Can you tell me > how to I can read the results in tksurfer? > > mris_glm --design ons_glm.mtx --hemi lh --surfmeas thickness --trgsubj > average_ons -nsmooth 50 --beta beta bfloat --var var bfloat > > mris_glm --design ons_glm.mtx --hemi lh --trgsubj average_ons --beta_in > beta bfloat --var_in var bfloat --gcv 0 0 1 --sigt ./age-sigt-lh.w paint > > INFO: loading surface > /space/engram/6/users/emoaging//average_ons/surf/lh.sphere.reg > corRead(): can't open file > /space/engram/6/users/emoaging//average_ons/surf/../mri/orig/COR-.info > INFO: cannot find mri/orig volume to get c_(ras) information. > INFO: transform src volume information cannot be found. assume c_(ras_ = 0 > INFO: destination surface points may be shifted in the volume. > INFO: you should put the src info in the transform. > INFO: transform dst volume information cannot be found. > INFO: if the target is MNI average_305, then you can do 'setenv > USE_AVERAGE305 true' > INFO: otherwise c_(ras) is set to 0. destination surface points may be > shifted. > nvertices = 163842 > surface nvertices 163842 > surface area 125674.750000 > INFO: loading beta_in beta > Reading /autofs/space/engram_006/users/emoaging/beta_000.bfloat ... > INFO: bvolumeRead: min = 0.406867, max = 5.76361 > INFO: loading var_in var > Loading surface source data var as bfloat > Reading /autofs/space/engram_006/users/emoaging/var_000.bfloat ... > INFO: bvolumeRead: min = 0.00363081, max = 0.725406 > Done Loading var > writing surface values to ./age-sigt-lh.w. > avg = -1.378, stdev = 2.493, min = -14.280, max = 9.789 > done > > > Keyma Prince > Massachusetts Institute of Technology > Department of Brain and Cognitive Sciences > NE20-392 > Cambridge, MA 02139 > > On Fri, 28 Jan 2005, Bruce Fischl wrote: > > > Hi Keyma, > > > > mris_twoclass is for making maps of thickness differences, not for the > > output of parcellate_subject, which you can just import into excel (using > > mris_anatomical_stats -a $annot_file -b $subject $hemi. In any case, > > mris_twoclass has been deprecated since Doug wrote mris_glm > > > > cheers, > > Bruce > > > > > > On Fri, 28 Jan 2005, Keyma Prince wrote: > > > > > Hello, > > > > > > I am trying to use mri_twoclass for the first time to do a simple > > > comparision of means for the output from parcellate_subject(i.e. cortical > > > thickness and cortical volume) between 2 groups. This the command line > > > i'm using but I keep getting the following output: > > > > > > mris_twoclass -o average7 lh thickness c1_emot_104 c1_emot_106:c2_emot_101 > > > c2_emot_103 -t .01 > > > > > > output: using average7 as output subject > > > mris_twoclass: must spectify ':' between class lists > > > > > > location: /space/engram/6/users/emoaging/ > > > > > > Also is mri_twoclass better than mris_glm to use for comparing the > > > parcellation results between 2 groups? > > > > > > thanks, > > > > > > -Keyma > > > > > > > > > Keyma Prince > > > Massachusetts Institute of Technology > > > Department of Brain and Cognitive Sciences > > > NE20-392 > > > Cambridge, MA 02139 > > > _______________________________________________ > > > 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
