Subspace_MESE

Documentation for the Subspace_MESE package, which implements the necessary functions to convert and reconstruct an accelerated 3D Multi-Echo Spin-Echo sequence with a subspace reconstruction in order to generate T2 maps.

How to give credit

If you use this package please acknowledge us by citing : https://doi.org/10.1002/mrm.30146

Additionally, if you use the sequence available in the MR sequence folder, please contact us to sign the sequence transfer agreement : aurelien.trotier@rmsb.u-bordeaux.fr

Bruker Acquisition

This package is compatible with the sequence : a_MESE_CS which is available as a binary file in the folder : MR_sequence

The sequence is only available for the version PV6.0.1, PV360:3.5 and 3.6. The protocol used for an acceleration factor of CS=8 is also available.

Reconstruction Pipeline

The reconstruction pipeline includes 4 steps :

  • Conversion of the Bruker rawdataset to a MRIReco compatible format (/src/bruker_sequence.jl)
  • Generation of the subspace (/src/build_basis.jl)
  • Reconstruction of the subspace coefficient and the virtual echo images
  • T2 fitting (/src/fit_T2_MESE.jl)

Reconstruction Pipeline

Those steps are described in their dedicated sections.

Example

Reproduction of figure 8 can be performed at this link