J-Editing Toolkit (JET)

This is the GitHub repository for J-Editing Toolkit (JET). DOI: http://doi.org/10.5281/zenodo.3967565.

• Major Contributors: Chen "Raphael" Liu, MS; Nanyan "Rosalie" Zhu, MA; Jia Guo, PhD.
• Contributors: David J. Ma, MS; Roshell Li, MS; Jochen Weber, MS; Kay C. Igwe, MS; Emily Turner Wood, MD/PhD; Wafae Labriji; Vasile Stupar, PhD; Gregory Smith, PhD.
• Collaborators：Douglas L Rothman, PhD; Robin de Graaf, PhD; Emily Turner Wood, MD/PhD; Neil Harris, PhD; Florence Fauvelle, PhD; Yanping Sun, PhD.
• Correspondence: Jia Guo, PhD. (Email: jg3400@columbia.edu) For questions, concerns and potential collaboration, please contact Jia Guo at jg3400@columbia.edu.

Installation

Please refer to the installation guide.

User Manual

The user guide for version 2 can be found in both PDF and in PowerPoint. The most comprehensive details can be found in the Technical White Paper.

The white paper for version 1 is archived here.

Academic Use and Proper Citation

When JET is used in publications, proper reference to the following papers and this software should be made. (Paper + doi of this software.) An article describing the JET toolbox is under preparation. It will be the most proper paper to cite once available. For now please cite these papers partially describing the method used in the toolbox instead.

1. MLA: Liu, Chen, et al. "JET-A Matlab toolkit for automated J-difference-edited MR spectra processing of in vivo mouse MEGA-PRESS study at 9.4 T." Joint Annual Meeting ISMRMSMRT (Vancouver, Canada). 2021.

BibTex:

@inproceedings{liu2021jet,
  title={JET-A Matlab toolkit for automated J-difference-edited MR spectra processing of in vivo mouse MEGA-PRESS study at 9.4 T},
  author={Liu, Chen and Ma, David Jing and Zhu, Nanyan and Igwe, Kay and Weber, Jochen and Li, Roshell and Wood, Emily Turner and Labriji, Wafae and Stupar, Vasile and Sun, Yanping and others}
  publisher={Joint Annual Meeting ISMRM-SMRT (Vancouver, Canada) Proceedings},
  year={2021}
}

2. MLA: Guo, Jia, et al. "In vivo detection and automatic analysis of GABA in the mouse brain with MEGA‐PRESS at 9.4 T." NMR in Biomedicine 31.1 (2018): e3837.

BibTeX:

@article{guo2018InVivoGABAMouseBrainMEGAPRESS,
  title={In vivo detection and automatic analysis of GABA in the mouse brain with MEGA-PRESS at 9.4 T},
  author={Guo, Jia and Gang, Zhu and Sun, Yanping and Laine, Andrew and Small, Scott A and Rothman, Douglas L},
  journal={NMR in Biomedicine},
  volume={31},
  number={1},
  pages={e3837},
  year={2018},
  publisher={Wiley Online Library},
  doi={https://doi.org/10.1002/nbm.3837}
}

3. MLA: Guo, Jia, et al. "Automated MR Spectrum Registration for In Vivo Mouse MEGA-PRESS Study at 9.4T And the Introduction of MRSMouse2.0." Joint Annual Meeting ISMRM-ESMRMB 2018 Proceedings (2018).

BibTeX:

@inproceedings{guo2018MRSMouse,
  title={Automated MR Spectrum Registration for In Vivo Mouse MEGA-PRESS Study at 9.4T And the Introduction of MRSMouse2.0},
  author={Guo, Jia and Rothman, Douglas L and Small, Scott A},
  publisher={Joint Annual Meeting ISMRM-ESMRMB 2018 Proceedings},
  year={2018}
}