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
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