Preclinical PCASL Pipeline

Runner: pyasl.pipelines.preclinical_pcasl_pipeline.run_preclinical_pcasl_pipeline

Purpose. Full preclinical pCASL chain (Bruker or NIfTI), including steady-state trim, control/label split, M0, PLD slice adjustment, relative CBF, brain mask, and saves.

Inputs

• data_dir (used for relative path resolution), config_path.

YAML Example

type: pcasl
steps:
  - module: BrukerLoader
    params: { expno: 18, procno: 1 }   # root is injected automatically
  - module: SteadyStateTrim
    params: { trim: 2 }
  - module: ControlLabelSplit
    params: { control_first: true }
  - module: MotionCheck
  - module: DiffImage
  - module: ComputeM0
    params: { TR: from_meta, T1t: 1900 }
  - module: SlicePLDAdjust
    params: { SGap: 31, T1blood: 2800 }
  - module: CBFRelative
    params: { vmax: 10 }
  - module: BrainMask
    params: { thres: 0.2, open_iter: 2, close_iter: 2 }
  - module: SaveOutputs