So what I need to do is to run the 1st level FEAT as usual for the FSL
pipeline, and repeat this analysis for FS with the only difference been
to set the "Spatial smoothing FWHM" to zero on the pre-stats tab of the
FEAT GUI?
Also, can you explain if this smoothing on the FEAT GUI is the 3D you
refer to? And how 2D smoothing is accomplished?
Thank you.
Estephan
Douglas N Greve wrote:
The example_func does not actually get smoothed, so smoothing itself
will not affect the registration. 3D smoothing will smooth values from
WM and CSF into gray and from across sulci into functionally distinct
regions. For this reason we recommend not using 3D smoothing (or doing
2D smoothing on the surface). Unfortunately, this requires two
different analyses.
doug
Estephan Moana wrote:
Hello all, I took the FS course last June at the OHBM in San
Francisco, and am now playing with it to get to know it better. One
of the slides on the talk about FSL-FS integration mentioned that the
input data (from FEAT) for the reg-feat2anat command should have not
been smoothed prior to registering to FS.
Considering that FEAT 1st level analysis has a default of 5mm spatial
smoothing (and that's what I used on my data), it seems
counterintuitive to need to run a 1st level analysis again so the
output files are not spatially smoothed.
So my questions are: 1) having the example_func file spatially
smoothed will necessarily hinder a proper registration to the FS
anatomical?; 2) if so, should I re-run all my FEAT 1st level analysis
without smoothing or is there any other way?
I know this is quite a beginners question, but I could not find the
answers on the FS FAQ or the mailing list archives. I appreciate any
light on this.
Regards,
Estephan Moana, DDS
Graduate Student
Oral Biology PhD Program - Neurobiology track
School of Dentistry, UNC- Chapel Hill
2140 Old Dental Building, CB# 7455
Chapel Hill, NC 27599
Phone: (919) 966-5680 Fax: (919) 966-5339 Cell: (612) 702-3295
mo...@email.unc.edu <mailto:mo...@email.unc.edu>
------------------------------------------------------------------------
_______________________________________________
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
