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

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

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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