Segment Spinal Cord — sct_segment_sc • scimagR

Runs SCT's contrast-agnostic spinal cord segmentation model.

Usage

sct_segment_sc(
  input,
  output = NULL,
  output_dir = NULL,
  overwrite = FALSE,
  verbose = TRUE,
  qc_dir = NULL
)

Arguments

input: Character. Path to NIfTI file (.nii.gz).
output: Character. Path for output segmentation. Auto-generated if NULL.
output_dir: Character. Directory for output. Alternative to output.
overwrite: Logical. Re-run if output exists? Default FALSE (idempotent).
verbose: Logical. Print progress. Default TRUE.
qc_dir: Character. If provided, auto-generate QC report.

Value

Character. Path to output segmentation file, or NA on failure.

Examples

if (FALSE) { # \dontrun{
sct_segment_sc("sub-01_T2w.nii.gz")
} # }