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16. Talairach Resampling using func2tal-sess |
Index TableOfContents
Name
func2tal-sess - resamples functional data from native to Talairach space
Synopsis
func2tal-sess -analysis (analysisname) -res (mm) -s (subjectname) or -sf (subjectfilename) -d (subjects_dir)
Arguments
Positional Arguments
none |
Required Flagged Arguments
-analysis name |
name of functional analysis from which data is to be resampled |
-s sessid or -sf sessidfile |
subject name or name of text file containing list of subjects |
-d srchdir or -df srchdirfile |
name of subject directory |
-res mm |
talairach resolution in mm (1,2,4,8) |
Optional Flagged Arguments
-funcstem stem |
stem of functional volume to convert |
-functype type |
type of functional volume (<auto>,selxavg,selavg,raw,sfa) |
-talstem stem |
stem of talairiach volume |
-reg file |
path of registration file (funcdir/register.dat) |
-xfm file |
spec xfm file as found in subjid/mri/transforms |
-fixxfm |
fix xfm for non-zero orig center |
-umask umask |
set umask |
-version |
print version and exit |
Outputs
This will create a subdirectory called "tal" under the bold/analysisname directory for each session. Within this directory, two new volumes will be created with stems "h" and "h-offset". The dimensions of this volume will depend upon the resolution specified. Typically one uses 2 or 4 mm. The smaller the resolution, the larger the volume and the more disk space and processing time required. As a rule of thumb, the Talairach resolution should be about the same that of the underlying functional data.
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
func2tal -analysis (analysisname) -sf (subjectfilename) -res 4
Bugs
None
See Also
["othercommand1"], ["othercommand2"]
Links
References
["References/Lastname###"]
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>
Author/s
DougGreve PhD