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= Tips = When the registration fails, it could be because of a bad initialization. Check the first value in the mincost file. It will be at a value between 0 and 1.1, with 0 being perfect. Look at your good subjects to get an idea of what range to expect for your well-registered subjects. You should be able to use the registrations you created as input to bbregister (with the --init-reg option), and bbregister should do fine after that. |
Index
Contents
Name
command - 1/2 sentence summary
Synopsis
command argA argB -flag1 arg1 -flag2 arg2 [-flag3 arg3] [-flag4 arg4]
Arguments
Positional Arguments
argA |
brief description |
detailed description (eg, help file information) |
argB |
brief description |
detailed description (eg, help file information) |
Required Flagged Arguments
--s subject |
|
FreeSurfer subject name |
--mov volid |
|
input/movable volume |
--reg register.dat |
|
output registration file |
Optional Flagged Arguments
--nolog |
no log file |
using this flag will not create a log file |
-flag4 arg4 |
brief description |
detailed description (eg, help file information) |
Outputs
volume1 |
description |
volume2 |
description |
Description
type bbregister --help to get the full help on this.
Examples
Example 1
Intialize with FLIRT, view result with tkregister2:
- bbregister --s bert --mov func.nii --init-fsl --reg register.dat tkregister2 --mov func.nii --reg register.dat --surf
Example 2
Intialize with SPM, view result with tkregister2:
- bbregister --s bert --mov func.nii --init-spm --reg register.dat tkregister2 --mov func.nii --reg register.dat --surf
== Example 3 ==
Register a partial FoV using whole FoV as intermdediate:
- bbregister --s bert --mov partial.nii --init-fsl \
- --int whole.nii --reg register.partial.dat
Tips
When the registration fails, it could be because of a bad initialization. Check the first value in the mincost file. It will be at a value between 0 and 1.1, with 0 being perfect. Look at your good subjects to get an idea of what range to expect for your well-registered subjects. You should be able to use the registrations you created as input to bbregister (with the --init-reg option), and bbregister should do fine after that.
Bugs
None
See Also
Links
Methods Description
description description
References
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>