Hi Jahanvi,
1. yes, you need to create this table to then perform the stats 2. no, the format is as I described it below fsid fsid-base tp1_subA templatesubA tp2_subA templatesubA tp1_subB templatesubB tp2_subB templatesubB
this is assuming that you called your base templatesubA and templatesubB for the two subjects. It will automatically look in the tp1_subA.long.templatesubA etc. directories.
Best, Martin
On 12 May 2017, at 16:55, jahanvi patel jahanvipatel.tw@gmail.com wrote:
Hi Martin,
Do you mean by creating this long.testretest.qdec file, one can then perform the stats for the longitudinal2StageModel?
So for a 2 timepoints analysis, eg. TP1 & TP2. the long.testretest.qdec will be looking like this ?
fsid fsid-base
tp1_subA.long.TemplatesubA tp2_subA.long.TemplatesubA tp1_subB.long.TemplatesubB tp2_subB.long.TemplatesubB tp1_subC.long.TemplatesubC tp2_subC.long.TemplatesubC
. . .
Thanks,
Jahanvi
tksurfer fsaverage lh pial -overlay lh.testretest.thickness-pc1.fwhm15/osgm/sig.mgh
Hi Jahanvi,
long.testretest.qdec is a qdec table in the longitudional format (with the fsid-base as the second column).
For test-retest (e.g. same session with subject removal), you usually don't need a time column, that is why --generic-time is specified. the qdec table would just look like
fsid fsid-base
me me_test
me me_retest
you you_test
you you_retest
...
Best, Martin
On 05/08/2017 04:10 PM, jahanvi patel wrote: Hello list,
I have a simple question about the LongitudinalTwoStageModel tutorials on freesurfer website.
It is from this link https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalTwoStageModel https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalTwoStageModel
long_mris_slopes --qdec long.testretest.qdec \ --meas thickness \ --hemi lh \ --sd $SUBJECTS_DIR \ --do-pc1 --do-label \ --generic-time \ --fwhm 15 \ --qcache fsaverage \ --stack-pc1 lh.testretest.thickness-pc1.stack.mgh \ --isec-labels lh.testretest.fsaverage.cortex.label
My question is, what is the content of long.testretest.qdec ? I understood till 1st stage was done, we got only one file which is long.qdec.table.dat.
Could anyone help to clarify my question?
Thanks a lot Jahanvi
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