Use FSL's tbss_skeleton to skeletonise an FA image or project arbitrary
Usage
ni_fsl_tract_skeleton(
in_file,
alt_data_file = NULL,
alt_skeleton = NULL,
args = NULL,
project_data = NULL,
skeleton_file = NULL,
.cwd = NULL,
.env = NULL,
.engine = NULL,
.profile = NULL,
dry_run = FALSE,
echo = interactive()
)Arguments
- in_file
Character; file path. input image (typically mean FA volume) Required.
- alt_data_file
Character; file path. 4D non-FA data to project onto skeleton
- alt_skeleton
Character; file path. alternate skeleton to use
- args
Character. Additional parameters to the command
- project_data
Logical. project data onto skeleton
- skeleton_file
Character or numeric vector. write out skeleton image
- .cwd
Working directory override.
- .env
Named character vector of environment variables.
- .engine
Execution engine override.
- .profile
Runtime profile override.
- dry_run
Logical; preview command without executing.
- echo
Logical; echo stdout/stderr in real time.