| Deletions are marked like this. | Additions are marked like this. |
| Line 7: | Line 7: |
| [[Navigation(children)]] |
Index TableOfContents
Name
mc-sess - MotionCorrection using ["AFNI"]
Synopsis
mc-sess -s sessid -d srchdir [<options>] BR mc-sess -sf sessidfile -df srchdirfile [<options>]
Arguments
Positional Arguments
none
Required Flagged Arguments
-s sessid or -sf sessidfile |
description |
-d srchdir or -df srchdirfile |
description |
Optional Flagged Arguments
-method mcmethod |
afni |
-targnthrun n |
uses nth run as target. default: n=1 |
-toff m |
m is target image offset |
-fstem outstem |
stem of output motion-corrected volume (fmc) |
-fmcstem outstem |
stem of output motion-corrected volume (fmc) |
-umask umask |
set unix file permission mask to umask |
-version |
print version and exit |
-rlf runlistfile |
only process those in the runlist file |
Outputs
outstem |
motion-corrected volume |
Description
mc-sess performs MotionCorrection using the ["AFNI"] MotionCorrection tool. By default, the MotionCorrection is performed to the first run, although you can motion correct to a different run using the -targnthrun flag.
Examples
Example 1
mc-sess -s grp1id -d grp1dir
mc-sess using sess id and a search directory
Example 2
mc-sess -sf grp1sessfile -df grp1dirfile
mc-sess using sess id file and search directory file
Bugs
none
See Also
["othercommand1"], ["othercommand2"]
Links
FsFast, FsFastMotionCorrect, ["AFNI"]
Methods Description
The images were then motion corrected using the AFNI motion correction tool (http://afni.nimh.nih.gov/afni/).
References
["References/Cox1999"]
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>