Re: [Freesurfer] run preproc-sess with -nomc

2011-12-16 Thread Thunell Evelina
ta are yourfuncstem.nii). This will cause > selxavg3-sess to bypass the preprocessing. > doug > > Thunell Evelina wrote: >> Hi Doug, >> I might try to do it in SPM but it requires some more work I think - The >> Freesurfer retinotopic mapping analysis is automatic and easy to use

Re: [Freesurfer] run preproc-sess with -nomc

2011-12-13 Thread Thunell Evelina
results > to the surface? > doug > > Thunell Evelina wrote: >> >> Hi Douglas, >> >> I do most of my analysis in matlab and SPM. For this one part of my >> experiment - it's a retinotopic mapping that I will use to ensure that my >> ROIs are in

Re: [Freesurfer] run preproc-sess with -nomc

2011-12-12 Thread Thunell Evelina
run the registration. For the preprocessing you have set up, it requires that the registration be run at some point because it needs it to map the fmri to the surface. doug Thunell Evelina wrote: Hi, Does anyone know how to correctly use the -nomc and -noreg flags? When I run: preproc-sess -fwhm

[Freesurfer] run preproc-sess with -nomc

2011-12-08 Thread Thunell Evelina
Hi, Does anyone know how to correctly use the -nomc and -noreg flags? When I run: preproc-sess -fwhm 0 -surface self lhrh -s SessLP -fsd bold -nomc I get the error message: ERROR: could not determine file for /Applications/freesurfer/sessions/retinotopy/SessLP/bold/001/fmcpr I also tried prepr