Re: [Freesurfer] Custom color map in Freeview

nnotations (e.g., label/rh.aparc.a2009s.annot, right?) are what I need for this, but they're not plain text, so I don't know how to use them to create a colormap like Ruopeng suggested. _______ Ben Smith, MSc. Ph.D. Candidate University of Southern California https://

Re: [Freesurfer] Custom color map in Freeview

External Email - Use Caution Got it, thanks! Could you tell me how I can map a particular ROI (for instance the Destrieux cortical surface ROIs) to a set of vertices that make up the ROI? Is there a lookup table I can use? ___ Ben Smith, MSc. Ph.D. Candidate

Re: [Freesurfer] Custom color map in Freeview

External Email - Use Caution I've been trying to do this as well, but I can't see the right place to specify in freesurfer to specify an alternative lookup table. For instance, if I am coloring a pial surface, then the first possibility is to set a Color (where I can "load RGB map

[Freesurfer] Extract time-courses by ROI from preproc-sess preprocessed data

be inputing a result from vol2surf instead of from preprocessing output? Thanks in advance for any help you can provide! Best regards Ben Smith ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listi

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

images > separately (in the longitudinal stream). This creates two subject names; > use the appropriate one in each fmri session. > > > On 02/16/2018 02:30 AM, Ben Smith wrote: > > (Thanks for your feedback to my previous inquiry - I've resolved this > > problem) >

Re: [Freesurfer] Read 13, expected 64, could not read .nii.gz as type 24

Thanks for your help on this! It was a corruption problem, just as you said- didn't seem to be a disk space problem, but I deleted the file, re-ran, and things went fine. Cheers Ben _______ Ben Smith, MSc. Ph.D. Candidate University of Southern California

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

lt to process images without having a T1 from the same session as each image. If there's not an easy way to do this, would a suitable workaround be to create a separate anatomical subject folder for every subject*session? Thanks very much for your help! Best regards Ben _______

[Freesurfer] Read 13, expected 64, could not read .nii.gz as type 24

ead /expdata/bensmith/joint-modeling/data/msm/freesurfer/functional_preprocessed/sub106sess/bold/001/fmcpr.nii.gz as type 24 ___ Ben Smith, MSc. Ph.D. Candidate University of Southern California https://bjsmith.github.io/ w | +1 213-740 7851 m | +1 323-38

[Freesurfer] Spatial smoothing during preprocessing

alysis, at which point do I apply preprocessing? Is there a guide specifically describing how to apply smoothing to data originating from FSL? Thank you very much to anyone willing to help! Best regards Ben _______ Ben Smith, MSc. Ph.D. Candidate University of Southern Califo