Index
Contents
Name
func2sph-sess - resamples functional data from native space to spherical space
Synopsis
func2sph-sess -analysis <analysisname> -s <subjecname> or -sf <subjectfilename> -d <subjects_dir>
Arguments
Positional Arguments
none |
Required Flagged Arguments
-analysis analysisname |
session-level functional analysis name |
-sf sessidfile ... |
|
-df srchdirfile ... |
Optional Flagged Arguments
-hemi hemilist |
lh, rh, or <lh rh> |
-surf surfacename |
resample onto surfacename <white> |
-surfreg surfacename |
use surfacename for registration <sphere.reg> |
-trgsubject subjectname |
resample onto subject instead of ico |
-icoorder order |
icosahedron order 0-7 <7> |
-mapmethod method |
<nnfr> or nnf |
-float2int method |
tkreg, floor, round |
-projfrac fraction |
resample fraction of thickness into gray |
-spacedir |
save data to spacedir (sph) |
-umask umask |
set unix file permission mask |
-version |
print version and exit |
-fwhm fwhm |
smooth the volume before resampling (good with -synth) |
-synth |
synthesize volume with white gaussian noise |
Outputs
This will create a subdirectory called "sph" under the bold/analysisname directory for each session. Within this directory, two new volumes will be created with stems "h" and "h-offset". These are where the hemodynamic averages are stored.
Description
Spatial normalization is the process through which two or more subjects' brains are aligned or registered based on anatomical information. This is so that when the subjects' functional data are averaged together on a voxel-by-voxel basis, the voxels represent the same anatomical location in each subject. The Talairach transform is the traditional spatial normalization technique. However, the spherical transform (for cortical surfaces) is also supported in the standard stream. Henceforth, the term space will be used to refer to the way in which the functional data has been spatially normalized (or resampled). There are three spaces that are supported in the standard stream: native (no resampling), Talairach, and spherical. Resampling is always done on data averaged in an analysis (ie, not the raw data).
Examples
Example 1
func2sph-sess -analysis <analysisname> -sf <subjectfilename> -d <subjects_dir>
Bugs
None
See Also
Links
Methods Description
References
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>
Author/s
DougGreve, PhD