[Freesurfer] average MRI scans

2019-02-19 Thread Vivek Sharma
External Email - Use Caution I'm working on source reconstruction using MEG data. For which segmented T1 images of MRI scans are required. I use recon -all for individual subjects. Can we have a common average template made from MRI scans of all subjects. If I have MRI scans from

Re: [Freesurfer] How to automate recon-all command for multiple subjects

2018-11-21 Thread Vivek Sharma
all -i $fname -s $fnoext -all > end > > > On Tue, 20 Nov 2018, Vivek Sharma wrote: > > > > > External Email - Use Caution > > > > I have a folder, lets name xyz which contains .nii file. Now I want to > run recon-all for all the > > files in t

Re: [Freesurfer] How to automate recon-all command for multiple subjects

2018-11-20 Thread Vivek Sharma
External Email - Use Caution Hi The following code worked. for asubject in /home/vivek/Downloads/freesurfer/subjects/*.nii; do recon-all -s ${asubject%.nii} -i $asubject -all -qcache; done Thank you. On Tue, Nov 20, 2018 at 12:19 PM Vivek Sharma wrote: > I have a folder, l

Re: [Freesurfer] How to automate recon-all command for multiple subjects

2018-11-19 Thread Vivek Sharma
External Email - Use Caution I have a folder, lets name xyz which contains .nii file. Now I want to run recon-all for all the files in that folder. Please let me know how I can do that. On Tue, Nov 20, 2018 at 11:40 AM Vivek Sharma wrote: > I'm trying to run this code but i

Re: [Freesurfer] How to automate recon-all command for multiple subjects

2018-11-19 Thread Vivek Sharma
> > do > >recon-all -i $SUBJECTS_DIR/$i/ -s $i > >recon-all -all -subjid $i > > > > > > I didn't check if the scrips runs. That's the general structure. > > > > Best, > > Alex > > > > Le lun. 19 nov. 2018, à 06 h 26, Vivek Sharma &

[Freesurfer] How to automate recon-all command for multiple subjects

2018-11-19 Thread Vivek Sharma
. Thank you. -- Vivek Sharma Mobile: +919953582034 Skype: vivek.sharma1015 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer