Berkeley Advanced Reconstruction Toolbox (BART)

The Berkeley Advanced Reconstruction Toolbox (BART) is a free and open-source image-reconstruction framework for Computational Magnetic Resonance Imaging. It consists of a programming library and a toolbox of command-line programs. The library provides common operations on multi-dimensional arrays, Fourier and wavelet transforms, as well as generic implementations of iterative optimization algorithms. The command-line tools provide direct access to basic operations on multi-dimensional arrays as well as efficient implementations of many calibration and reconstruction algorithms for parallel imaging and compressed sensing.

List of features:

basic features:

• support for Linux, Mac OS X, and Windows (with Cygwin)
• multi-dimensional operations on arrays
• fast non-uniform Fourier Transform (nuFFT)
• multi-dimensional (divergence-free) wavelet transform
• parallel computation on multiple cores and with Graphical Processing Units (GPU)

iterative methods:

• Conjugate Gradients (CG)
• (Fast) Iterative Soft-Thresholding Algorithm (ISTA and FISTA)
• Alternating Direction Method of Multipliers (ADMM)
• Iteratively Regularized Gauss-Newton Method (IRGNM)

calibration methods for parallel MRI:

• direct calibration from k-space center
• Walsh’s method
• ESPIRiT

reconstruction methods for MRI:

• iterative parallel imaging reconstruction: POCSENSE, SENSE
• compressed sensing and parallel imaging
• non-linear inverse reconstruction: NLINV (blind multi-channel deconvolution)
• calibration-less parallel imaging: SAKE (structured low-rank matrix completion)

regularization (in arbitrary dimensions):

• Tikhonov
• total variation
• l1-wavelet
• (multi-scale) low-rank