Interface for FSL eddy_quad, a tool for generating single subject reports
Usage
ni_fsl_eddy_quad(
bval_file,
idx_file,
mask_file,
param_file,
args = NULL,
base_name = "eddy_corrected",
bvec_file = NULL,
field = NULL,
output_dir = NULL,
slice_spec = NULL,
verbose = NULL,
.cwd = NULL,
.env = NULL,
.engine = NULL,
.profile = NULL,
dry_run = FALSE,
echo = interactive()
)Arguments
- bval_file
Character; file path. b-values file Required.
- idx_file
Character; file path. File containing indices for all volumes into acquisition parameters Required.
- mask_file
Character; file path. Binary mask file Required.
- param_file
Character; file path. File containing acquisition parameters Required.
- args
Character. Additional parameters to the command
- base_name
Character. Basename (including path) for EDDY output files, i.e., corrected images and QC files
- bvec_file
Character; file path. b-vectors file - only used when <base_name>.eddy_residuals file is present
- field
Character; file path. TOPUP estimated field (in Hz)
- output_dir
Character. Output directory - default = '<base_name>.qc'
- slice_spec
Character; file path. Text file specifying slice/group acquisition
- verbose
Logical. Display debug messages
- .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.