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        Initialization Arguments         Initialization Arguments<<BR>>

NAME

  • bbregister

SYNOPSIS

  • bbregister --s <subj> --mov <volid> --reg <regfile> \

    • --<contrast>

DESCRIPTION

  • This program performs within-subject, cross-modal registration using a boundary-based cost function. The registration is constrained to be 6 DOF (rigid). It is required that you have an anatomical scan of the subject that has been analyzed in freesurfer.

POSITIONAL ARGUMENTS

  • None

REQUIRED FLAGGED ARGUMENTS

  • --s subject
    • FreeSurfer subject name as found in $SUBJECTS_DIR.

    --mov volid
    • "Moveable" volume. This is the template for the cross-modal volume. Eg, for fMRI, it is the volume used for motion correction.
    --reg register.{dat,lta}
    • Output FreeSurfer registration file (tkregister-style or LTA format).

    --vsm VoxelShiftMap

    • Include B0 distortion correction while performing registration. A voxel shift map can be created from a B0 map

      with the epidewarp.fsl script (in FreeSurfer)

    Initialization Arguments
    --init-coreg (Default)

    --no-coreg-ref-mask
    • Do NOT use aparc+aseg.mgz as a reference mask. It will not attempt to use aparc+aseg if it is not there.

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