Hi Sal,
asegstats2table (and aparc..) will take the longitudinal qdec file and
then automatically select the *.long.* directories to create the table.
So there is no need to move them to a separate folder.
The longitudinal qdec file is simply a table with at least 2 columns
(for stacking results, 2 is enough):
fsid fsid-base
where fsid is the id of the time point and fsid-base is the name of the
base :
fsid fsid-base
me1 me
me2 me
you1 you
you2 you
you3 you
etc.. It will then take the data from me1.long.me ...
You can have other columns, e.g. time_from_baseline, age, gender,
disease_group, drug_status, ...
Best, Martin
On 01/08/2014 01:27 PM, Salil Soman wrote:
Thank you Martin.
I will try this approach. I was able to temporarily move the
longitudinal subject data to its own folder to run aparc2table and
aseg2table. Hopefully this will also work for the hippocampal subfield
script.
Best wishes,
Sal
Salil Soman, MD, MS
Postdoctoral Research Fellow - Stanford Radiological Sciences Laboratory
Fellow - Palo Alto War Related Illness and Injury Study Center
WOC Neuroradiology Attending - Veterans Affairs Palo Alto Health Care
System
On Jan 7, 2014 8:07 AM, "Martin Reuter" <[email protected]
<mailto:[email protected]>> wrote:
Hi Salil,
just run the hippo-subfields on the longitudinal results like this:
recon-all -long <tpNi> <templateid> -hippo-subfields
to generate the subfield data. I am not familiar with the
kvlQuantify... script and think it works on all subjects in the
Subjects dir. Not sure what the best way is to solve this as your
subject dir contains also the cross and base results. Probably you
can run the script and it will simply skip the cross and base
directories (as no -hippo-subfields was run on them).
Best, Martin
On 01/05/2014 01:40 AM, Salil Soman wrote:
Hi,
I have been able to do the longitudinal processing steps for a
number of subjects with 3 time points each, and then extract the
generated statistics using aparcstats2table and asegstats2table.
Is it possible to perform longitudinal analysis of the
hippocampal subfields? If so, could someone point me to how to
perform this analysis,
as kvlQuantifyHippocampalSubfieldSegmentations.sh does not work
on the output files I've generated.
Thank you.
Salil Soman, MD, MS
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Martin Reuter, Ph.D.
Assistant in Neuroscience - Massachusetts General Hospital
Instructor in Neurology - Harvard Medical School
MGH / HMS / MIT
A.A.Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, MA 02129
Phone: +1-617-724-5652
Email:
[email protected]
[email protected]
Web : http://reuter.mit.edu
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