---------- Forwarded message ----------
Date: Sat, 18 Jul 2009 13:44:22 +0200
From: Rosa Steimke <rosastei...@gmx.de>
To: Bruce Fischl <fis...@nmr.mgh.harvard.edu>
Subject: writing thickness of ROI to tabel
Hi freesurfer experts,
iam trying to get the thichness of a Roi i specified in qdec into a table.
i used the mris_anatmical stats command to generate stats for this roi for all
participants. I tried the aparc2tabel command with different flags, but the roi
i specified was never inside the table.
wish flag do i have to use to get the roi that i drew in qdec?
thanks in advance!
rosa
-------- Original-Nachricht --------
Datum: Fri, 17 Jul 2009 14:35:55 -0400 (EDT)
Von: Bruce Fischl <fis...@nmr.mgh.harvard.edu>
An: Rosa Steimke <rosastei...@gmx.de>
CC: freesurfer@nmr.mgh.harvard.edu
Betreff: Re: [Freesurfer] mris_anatomical_stats
why is there a \ in your command line?
On Fri, 17 Jul 2009, Rosa Steimke
wrote:
Hi freesurfer experts,
I have a problem using the mris_anatomical_stats command to generate
stats for a region of interest that i drew in qdec.
It gives me the following error:
[admins-imac:~/Rosa_MRTs] steimke% mris_anatomical_stats -l
rh.FUSIFORM.label \ -t rh.thickness -b -f 1/stats/rh.FUSIFORM.label 1 rh
limiting computations to label rh.FUSIFORM.label.
Flagged-options must go first in argument list.
usage: mris_anatomical_stats [options] <subject name> <hemi> [<surface
name>]
This program measures a variety of anatomical properties.
Valid options are:
-i <low thresh> <hi thresh> - only consider thicknesses in
the specified range
-l <.label file> - limit calculations to specified label
-t <thickness file> - use specified file for computing
thickness statistics
-a <.annot file> - compute properties for each label
in the annotation file separately
-b - tabular output
-f <tablefile> - table output to a file named tablefile
(different format than -b) must specify
an annotation file with -a or label
file with -l
-log <log> - will write the stats into a file
named <log>
-nsmooth <#> - will smooth the thicknessmap # of
iterations before using it
-c <.ctab file> - output the colortable for this annotation
[admins-imac:~/Rosa_MRTs] steimke% mris_anatomical_stats -l
rh.FUSIFORM.label \ -t rh.thickness -b -f 1/stats/rh.FUSIFORM.label 1 rh
do you know what i did wrong?
thanks in advance!
rosa
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