Thank you kindly Martin, saved me a lot of trouble and time starting from scratch!
On Wed, Oct 18, 2017 at 9:45 AM, Martin Reuter <mreu...@nmr.mgh.harvard.edu> wrote: > Hi Garret, > > sure, there is no need to run qcache at all. Assuming you do a thickness > analysis, you can directly use mris_preproc to register all thickness maps > from only the first time point to fsaverage and smooth them (there you need > to pass a list of only the first longidutinal time points: sidtp1.long.base > ) . Then you can run mri_glmfit the same way as in any other cross > sectional analysis. > > Take a look at this page (Uncached Data): > > https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis > > Usually it is a good idea to separate the mapping and smoothing steps (as > described in the tutorial) by splitting into mris_preproc and > mris_surf2surf (for smoothing). The reason is that you can later easily > smooth at a different smoothing level and avoid a second time-consuming > mapping of all the thickness files. > > Best, Martin > > Am 17.10.2017 um 16:59 schrieb Garret O'Connell: > > > > Hello FreeSurfer experts, > > I am trying to do a cross-sectional baseline analysis from the outputs of > the longitudinal processing stream, following the advice on a previous > question's thread: > > https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2016- > March/044681.html > > From my reading of the issue, I need to run the following command, > entering the cross-sectional title folder as the first input. > > recon-all -long "subj_crossfolder" "subj_base" -qcache > > For this step, i know it is necessary that recon-all knows where the cross > folders are located, although from my understanding, it does not actually > use data from these folders., instead using the data in the .long folders. > > My issue is that I do not have access to the cross folders anymore, and > was wondering if there was a work around to do the cross sectional analysis > without them? > > Thanks for any help! > Garret > > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://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 > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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