Name

spatialsmooth-sess - 3D Gaussian smoothing using FSL IP

Synopsis

spatialsmooth-sess -i [instem] -o [outstem] -fwhm [fwhm] -s  [sessid] or -sf [sessidfile] -d  [srchdir] or -df [srchdirfile] [<options>]

Positional Arguments

none

Required Flagged Arguments

-i instem
  input functional volume stem 

-o outstem
  output functional volume stem 

-fwhm
  gaussian fwhm (sigma = fwhm/2.36)

-s [sessid] or -sf [sessidfile]  

-d [srchdir] or -df [srchdirfile] 

Optional Flagged Arguments

-fsd [fsdir]    

-noinorm
  do not intensity norm smoothed volume

-umask umask
  set unix file permission to [umask]

-version
  print version and exit

-help
  print help and exit

Outputs

volume1 - description
volume2 - description

Description

spatialsmooth-sess performs 3D Gaussian spatial smoothing using the ["FSL"] IP program. It will operate on the input volume in each run. The output volume will be placed in the same directory. FWHM is the full-width, half-maximum of the spatial filter gaussian (sigma = fwhm/2.36).

Example 1

spatialsmooth-sess -s sessid -d sessdir -i fmc -o fmcsm5 -fwhm 5

Smooth the motion corrected volume with a gaussian kernel with FWHM of 5 mm. The result will be placed in the volume fmcsm5. This is the stem that should be referenced when creating the anlysis. It will also automatically run intensity normalization (ie, inorm-sess) for the smoothed volume unless -noinorm is specified.

Example 2

spatialsmooth-sess

description

See Also

["inorm-sess"]

Author/s

DougGreve

Links

FsFast, ["FSL"]

References

None

Reporting Bugs

Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

Methods Description

The data were smoothed using a 3D Gaussian kernel with FWHM [fwhm]mm.

Category

CategoryFsFastCommandsSmoothing