Online MRI Reconstruction

Installation

Dependencies:

• PySAP
• PySAP-mri
• ModOpt
• And their dependencies.

1. Create a virtual environment (Python 3.6+)
2. Ensure to have OpenCL/ Cuda installed and setup on your machine

sudo apt install nfft # required for pynfft
pip install -r requirements.txt 
pip install --upgrade git+https://github.com/CEA-COSMIC/pysap.git
pip install --upgrade git+https://github.com/paquiteau/pysap-mri.git

TODO:

Parameters and Hyper-parameters

Inputs parameters

• Mono- vs Multi-coil MRI
• Size of the reconstruction
• Size of the kspace acquision
• Acquisition strategy of the kspace

Reconstruction Operator

• Fourier Operator: FFT2D, FFT1.5D, NUFFT
• Regularisation Domain: Wavelet(type, nb_scale)...
• Regularisation function:
  • Norm l_1 l_2 l_{1,2}, OWL
  • Order of the dimension (per coil, per bands, all coef...)
• Gradient formulation: Analysis vs Synthesis

Reconstruction Algorithm

Forward-Backward

-> Regularisation at which step

• POGM
• FISTA
• Vanilla Gradient Descent
• Custom Gradient Descent Strategies

Primal-Dual

-> regularisation mandatory at each step (use of the dual variable)

• Condat Vu