What is in lh.volume.average.fwhm10.mgh? It is named as if it is a file with surface data in it.
On 02/11/2014 11:04 AM, Wang, Guoying wrote: > > Dear freesurfer experts, > > I am trying to compute the differences in subcortical volumes between > two groups. I have read previous mail, > https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg17597.html > , and in this mail, your answer was ‘you can do a subcortical volume > analysis by working with the aseg.stats file directly or compute with > mri_glmfit’. So, I tried to use ‘mri_glmfit’ to calculate it . but > without specifying the argument ‘—surf’ (because it is mentioned in > your webpage that ‘if –surf is not specified, then mri_glmfit will > assume that the data are volume-based and use the geometry as > specified in the header to make spatial calculations’). However, when > I ran the command, it gave me the error message which said :’ you must > use—surface subject hemi’ with surface data’. Do I misunderstanding > some point? > > On the other hand, if there is statistical differences in subcortical > volumes. How to display them in freesurfer? Sorry, I am a beginner. I > know someone asked this question before, but I am still not fully > understand it . > > Thank you for your help and reply in advance ! > > Please find the command and error message attached > > --------------------------------------------------------------------- > > $Id: mri_glmfit.c,v 1.196.2.6 2011/05/05 20:54:25 greve Exp $ > > cwd /gdata1/freesurfer_data/subjects/gy_stat/time1_average_cross/aseg_test > > cmdline mri_glmfit --y lh.volume.average.fwhm10.mgh --fsgd y_fsgd.txt > doss --C lh-volume-age-gender-ICV-cor.mtx --glmdir > lh.seg_volume_sexageicv.glmdir > > sysname Linux > > FixVertexAreaFlag = 1 > > UseMaskWithSmoothing 1 > > OneSampleGroupMean 0 > > y > /gdata1/freesurfer_data/subjects/gy_stat/time1_average_cross/aseg_test/lh.volume.average.fwhm10.mgh > > logyflag 0 > > usedti 0 > > FSGD y_fsgd.txt > > glmdir lh.seg_volume_sexageicv.glmdir > > IllCondOK 0 > > ReScaleX 1 > > DoFFx 0 > > Loading y from/………/ lh.volume.average.fwhm10.mgh > > ERROR: you must use ‘—surface subject hemi’with surface data > > ------------------------------------------------------------------------------------------------------ > > Guoying > > > > _______________________________________________ > 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.
