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mc-sess -s sessid -d srchdir [options] [[BR]] mc-sess -sf sessidfile -df srchdirfile [options] |
mc-sess -s <sessid> -d <srchdir> [options] [[BR]] mc-sess -sf <sessidfile> -df <srchdirfile> [options] |
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>