External Email - Use Caution Great! So I also need to subtract 8 seconds from the onset time of each stimulus when I make the *paradigm file*, right? If the duration of stimulus is smaller than 1 second, such as 0.05 second, do I need to change its duration to 0 in a event-related deign?
On Wed, 7 Nov 2018 at 13:51, Greve, Douglas N.,Ph.D. <dgr...@mgh.harvard.edu> wrote: > First run > mri_convert --nskip 4 > fmcpr.up.sm5.fsaverage.lh.nii.gzfmcpr.up.sm5.fsaverage.lh.skip4.nii.gz > then concat the skip files > > > On 11/07/2018 01:42 PM, Zhi Li wrote: > > > > External Email - Use Caution > > > > How can I discard the first 4 time points of each run during > > concatenating several runs? I know I can skip the first 4 time points > > with the flag /-nskip 4/ in configuring a analysis, but this condition > > can be only applicable when each run is modelled into the GLM > > independently, right? If I feed the /mkanalysis-sess/ with the > > concatenated file, it will only skip the first 4 time points of the > > 1st run in this file. > > > > In addition, if my task design is event-related, do I need to set the > > duration of each stimulus as 0? > > > > Thanks and best > > > > On Wed, 7 Nov 2018 at 12:59, Greve, Douglas N.,Ph.D. > > <dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote: > > > > > > If you just want to concatenate you can use something like > > mri_concat 001/fmcpr.up.sm5.fsaverage.lh.nii.gz > > 002/fmcpr.up.sm5.fsaverage.lh.nii.gz > > 003/fmcpr.up.sm5.fsaverage.lh.nii.gz --o > > all.fmcpr.up.sm5.fsaverage.lh.nii.gz > > > > > > > > > > On 11/07/2018 12:30 PM, Zhi Li wrote: > > > > > > External Email - Use Caution > > > > > > Hi Dougles, > > > > > > Thank your for your reply. Now I am using FSFAST, but I didn't find > > > flags in prepro-sess which can be used in combing or dividing fMRI > > > data. Using the following code I could get three files for each run > > > (left cortical surface, right cortical surface and sub-cortical > > volume): > > > > > > /preproc-sess -sf subjects -fsd task_name -sliceorder so -surface > > > fsaverage lhrh -mni305 -fwhm 5 -per-session/ > > > > > > Can I use preproc-sess to combine files from different runs, and > > > discard the first 4 time points of each run? If so, could you > > please > > > give me a example? > > > > > > Thanks and best, > > > > > > Zhi > > > > > > > > > On Wed, 7 Nov 2018 at 10:16, Greve, Douglas N.,Ph.D. > > > <dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu> > > <mailto:dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>>> > > wrote: > > > > > > Are you using FSFAST? If you run the preprocessing > > > (preproc-sess), then > > > it will get you most of the way there. > > > > > > On 11/05/2018 10:16 AM, Zhi Li wrote: > > > > > > > > External Email - Use Caution > > > > > > > > Hello FreeSurfer experts, > > > > > > > > May I ask how can I modify the surface-based fMRI data, > > such as > > > > combing two independent sessions into one or dividing one > > 4D into a > > > > series of 3D surface-based fMRI files in which each one > > denotes a > > > > single volume/TR? Thank you very much. > > > > > > > > Best wishes, > > > > > > > > Zhi > > > > > > > > > > > > _______________________________________________ > > > > Freesurfer mailing list > > > > Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > > <mailto:Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > <mailto:Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu <mailto: > Freesurfer@nmr.mgh.harvard.edu> > > 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 > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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