This repository contains a Jupyter Notebook with an example code for a spiral MRI sequence in the Pulseq open source file format [1]. The Pypulseq [2] package for Python is used for the designing pulses and creating the sequence file. The Jupyter Notebook contains a reduced example for better visualization.
The protocol file is written in the ISMRMRD format [3] and can be used for reconstruction of acquired data with the Python Reco Server
The Jupyter Notebook can be used inside binder without further installation requirements.
The Notebook can also be used with a local Python installation containing Jupyter Lab and numpy with the following additional installation requirements:
- Pypulseq: (https://github.com/imr-framework/pypulseq)
- spiraltraj: see README in the spiraltraj folder
- ISMRMRD Python API:
pip install ismrmrdor
git clone https://github.com/ismrmrd/ismrmrd-python
cd ismrmrd-python
git checkout v1.9.3
pip install .[1] Layton, K. J. et. al. Pulseq: A rapid and hardware-independent pulse sequence prototyping framework, MRM, 2017;77(4):1544-1552, http://pulseq.github.io/
[2] Ravi, Keerthi, Sairam Geethanath, and John Vaughan. "PyPulseq: A Python Package for MRI Pulse Sequence Design." Journal of Open Source Software 4.42 (2019): 1725., https://github.com/imr-framework/pypulseq
[3] Inati, J. I. et. al. ISMRM Raw data format: A proposed standard for MRI raw datasets, MRM, 2017;77(1):411-421, https://ismrmrd.github.io