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## Note: This page was created with the CommandTemplate ## ## If you're modifying this page please take a look at the ## latest version of CommandTemplate to ensure that you're ## using the latest version of the CommandTemplate ## ## See HelpOnCommandTemplate for description of formatting '''Index''' <<TableOfContents>> = Name = mri_motion_correct.fsl - Aligns and averages two or more volumes. Uses the FSL flirt program. = Synopsis = The inputs and output can be any format accepted by [[mri_convert]] = Description = calls fsl_rigid_register which calls flirt. See fsl_rigid_register -help. This should basically do the same thing as mri_motion_correct and mri_motion_correct2. One difference is that mri_motion_correct.fsl forces the input data to be float when converting to ANALYZE, and so the final output is is also float. mri_motion_correct2 keeps the native precision. = Examples = == Example 1 == {{{ mri_motion_correct.fsl -i 002.mgz -i 003 -o mc4.img }}} 002.mgz is a volume in compressed MGH format. 003 is in COR format. mc4.img (the output) is in analyze format. == Example 2 == Say you have many input volumes, eg, 001.mgh ... 010.mgh, and you do not want to list all of them on the command-line with a -i. Then you can: {{{ mri_motion_correct.fsl -o mc.mgh -wild *.mgh }}} Note that -wild must appear BEFORE the wildcard. = See Also = [[mri_motion_correct]] = Reporting Bugs = Report bugs to <analysis-bugs@nmr.mgh.harvard.edu> |
Index
Name
mri_motion_correct.fsl - Aligns and averages two or more volumes. Uses the FSL flirt program.
Synopsis
The inputs and output can be any format accepted by mri_convert
Description
calls fsl_rigid_register which calls flirt. See fsl_rigid_register -help. This should basically do the same thing as mri_motion_correct and mri_motion_correct2. One difference is that mri_motion_correct.fsl forces the input data to be float when converting to ANALYZE, and so the final output is is also float. mri_motion_correct2 keeps the native precision.
Examples
Example 1
mri_motion_correct.fsl -i 002.mgz -i 003 -o mc4.img
002.mgz is a volume in compressed MGH format. 003 is in COR format. mc4.img (the output) is in analyze format.
Example 2
Say you have many input volumes, eg, 001.mgh ... 010.mgh, and you do not want to list all of them on the command-line with a -i. Then you can:
mri_motion_correct.fsl -o mc.mgh -wild *.mgh
Note that -wild must appear BEFORE the wildcard.
See Also
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>