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...@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 > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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