Index

Name

spatialsmooth-sess - 3D Gaussian Smoothing using FSL IP

Synopsis

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

Arguments

Positional Arguments

none

Required Flagged Arguments

-i instem

input functional volume stem

-o outstem

output functional volume stem

-fwhm 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

outstem

ouput volume

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).

Examples

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

Bugs

none

See Also

inorm-sess

Links

FsFast, FSL

Methods Description

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

References

none

Reporting Bugs

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

Author/s

DougGreve

spatialsmooth-sess (last edited 2008-04-29 11:45:26 by localhost)