Journal: Magnetic resonance in medicine

Article Title: Open-Source MR Imaging and Reconstruction Workflow

doi: 10.1002/mrm.29384

Figure Lengend Snippet: Overview of the whole workflow with data acquisition at an MRI scanner (light blue) or in JEMRIS simulations (light green). Pulseq sequence and MRD metadata files are created with either PyPulseq or JEMRIS. The sequence file is executed at the scanner using a vendor-specific interpreter. Raw data are sent to the reconstruction server via the FIRE interface and the metadata from the MRD file are merged. Images are reconstructed with BART and are sent back to the scanner via FIRE. In an offline reconstruction, the FIRE interface is replaced by an MRD converter and a Python-based client. Acquired data from JEMRIS simulations is merged with the metadata inside JEMRIS and saved in the MRD format. The same reconstruction pipeline as for data from an MRI scanner data is executed.

Article Snippet: For identification of the files, the MD5 hash of the Pulseq sequence file is calculated and appended to both the sequence and the metadata file as a signature. . PyPulseq The PyPulseq toolbox implements the functionalities of the official Pulseq MATLAB toolbox in Python.

Techniques: Sequencing