Re: [Freesurfer] FsFastPreProc Registration of files from each session to their session's structural image

2018-02-20 Thread Douglas N Greve
Yes, it can easily align fmri and and structurals from a different scanner. For the record, FSL can too, they are just being very, very conservative. On 02/20/2018 05:38 PM, Ben Smith wrote: > Thanks - I very much appreciate your thorough explanation! > > We don't expect changes in the actual

Re: [Freesurfer] FsFastPreProc Registration of files from each session to their session's structural image

2018-02-20 Thread Ben Smith
Thanks - I very much appreciate your thorough explanation! We don't expect changes in the actual structure of the brain, but I am concerned about alignment of the structure in 3D space within the scanner. You're probably aware that when using software like FSL, it is typically advisable to align

Re: [Freesurfer] FsFastPreProc Registration of files from each session to their session's structural image

2018-02-20 Thread Douglas N Greve
If you are combining the T1 images together in recon-all, then it is not possible to separate them in FSFAST. If you do not expect structural changes, then you can just register both fMRI sessions to the single anatomical. If you are expecting changes, then analyze the T1 images separately (in

[Freesurfer] FsFastPreProc Registration of files from each session to their session's structural image

2018-02-15 Thread Ben Smith
(Thanks for your feedback to my previous inquiry - I've resolved this problem) I'm running FsFastPreProc on a dataset with a number of subjects, where each subject has two sessions. There's a separate structural image taken in each session. I want to make sure each subject's functional data is