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PWI Pipeline

Postprocessing pipeline for Dynamic Susceptibility Contrast MRI (DSC-MRI) perfusion data (PWI).

This pipeline is to: Calculate PWI maps from DSC-MRI data (rCBF, rCBV, MTT, TTP, K2)

__init__

Postprocessing pipeline for DSC-MRI perfusion data (PWI).

Parameters:

Name Type Description Default
subject BIDSSubject

A BIDS subject object.

 required
session BIDSSession

A BIDS session object.

 required
output_path str

Directory to save outputs.

 required
use_which_pwi str

Keyword to select the desired PWI file.

 'pwi'
use_which_t1w str

Keyword to select the desired T1w file.

 None
extract_from str

If extracting results, please provide it.

 None

A more detailed description:

  1. Strip the PWI data using SynthStrip to create a brain mask.

  2. Calculate the PWI concentration map (a 4D image).

  3. Auto select the AIF (arterial input function) from the concentration data. (Please refer to Auto AIF Selection)

  4. Generate the perfusion maps (rCBF, rCBV, MTT, TTP, K2) using the MATLAB-based dsc-mri-toolbox.