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|| -flag3 arg3 || brief description ||detailed description (eg, help file information) || || --nolog || no log file ||using this flag will not create a log file ||

Index

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
    tkregister2 --mov partial.nii --reg register.partial.dat --surf

Bugs

None

See Also

othercommand1, othercommand2

Links

FreeSurfer, FsFast

Methods Description

description
description

References

References/Lastname###

Reporting Bugs

Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

Author/s

JaneSmith

bbregister (last edited 2019-07-11 13:35:54 by 172)