Hi Martin,
I am a little confused about these mapped files in the base directories
you are referring to. How would I check them?
-Shannon K.
On Fri, Sep 28, 2012 at 4:08 PM, Martin Reuter
mreu...@nmr.mgh.harvard.eduwrote:
I see,
Usually people look at thickness maps and volume on an ROI
Hi Shannon,
that cannot be. It either indicates a serious bug (which we have not yet
encountered in our data) or a problem with your processing.
Can you send me:
- the version you use
- the command line you run
- the output you get
Also long_mris_slopes is designed for analyzing surface maps
Hi Martin,
I am running FS version 5.1.
This is the command line I ran:
long_mris_slopes --qdec ./qdec/long.qdec.table.dat --meas volume --hemi lh
--do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time years
--qcache fsaverage
These are the outputs I get, which are located in the
I see,
Usually people look at thickness maps and volume on an ROI basis. Volume on the
surface I think is simply area times thickness. Not sure how meaningful that is
as area of a vertex depends on the triangle mesh.
Anyway, you look at smoothed maps on fsaverage. The average volume for each
Hi Shannon,
long_mris_slopes works for surface maps (both thickness and volume
should work). In both cases it should compute the temporal average.
I have another scripts that works for stats files (long_stats_slopes) in
the same way.
How many time points do you have, how far apart (equally
Hi,
I had a question about how the temporal average is calculated for subjects
with multiple timepoints. I used the long_mris_slopes command on a
longitudinal set of data. However, when I compared the average volumes
calculated through this command to the average volumes calculated in excel
after
Hi Shannon
You probably mean average thickness.
My scripts compute the temporal average from the linear fit (at mid time),
which can be differed from simply averaging values.
Best Martin
Shannon Kogachi skoga...@gmail.com wrote:
Hi,
I had a question about how the temporal average is calculated
Hi Martin,
When I used the long_mris_slopes command for the thickness, the average
thickness calculated in FreeSurfer was pretty similar to averaging the
values in FreeSurfer. Does this command only work thickness measures and
not for volume or area? Thanks!
-Shannon
On Wed, Sep 26, 2012 at
