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@UCSF-HMTRC

UCSF Hyperpolarized MRI Technology Resource Center

Methods for hyperpolarized MRI data acquisition, analysis, and instrumentation. Supported by NIH grant #P41EB013598
README.md

Hyperpolarized MRI Technology Resource Center

The goal of this organization is to provide a centralized respoistory of tools for hyperpolarized MRI experiments. It is supported by the Hyperpolarized MRI Technology Resource Center (HMTRC), housed at the Uniersity of California - San Francisco (UCSF) and funded by the US NIH National Institute of Biomedical Imaging and Bioengineering (NIBIB) grant # NIH P41EB013598.

The content includes simulations, digital phantoms, pulse sequence development software, pulse sequence programs, image reconstruction, data processing, and data analysis. See https://hyperpolarizedmri.ucsf.edu/research-tools-dissemination for more information

Major Projects

hyperpolarized-mri-toolbox

https://github.com/LarsonLab/hyperpolarized-mri-toolbox

The goal of this toolbox is to provide research-level and prototyping software tools for hyperpolarized MRI experiments. It is currently based on Matlab code, and includes code for designing radiofrequency (RF) pulses, readout gradients, and data reconstruction.

Spectroscopic Imaging VIsualization and Computing (SIVIC)

https://github.com/SIVICLab/sivic

The goal of this package is to provide data processing and visualization tools for MR spectroscopic imaging, include hyperpolarized MRI data. It includes command line tools for data processing and a powerful GUI to navigate and visualize data.

Private Pulse Sequence Programs

This organization also hosts pulse sequence programs for MRI scanners from Bruker, and GE Healthcare.
These repositories are available by request because they rely on proprietary components, please email [email protected] for access requests

Current methods include

  • Bruker Slab Spectroscopy
  • Bruker 2D CSI
  • Bruker 2D EPSI
  • GE Metabolic-specific imaging with EPI
  • RTHawk Resesarch metabolite-specific imaging with spirals and real-time calibration methods

Pulseq Pulse Sequence Programs

The Pulseq project is an open source framework for the development and execution of magnetic resonance (MR) pulse sequences for imaging and spectroscopy, and recently there are several available methods for Hyperpolarized MRI:

Pinned Loading

  1. sivic sivic Public

    Forked from SIVICLab/sivic

    SIVIC is an open-source, standards-based software framework and application suite for processing and visualizing DICOM MR Spectroscopy data. Through the use of DICOM, SIVIC aims to facilitate the a…

    C++ 1

  2. hp13c_EPI-hosvd_denoising hp13c_EPI-hosvd_denoising Public

    MATLAB 6

  3. Spectral-Spatial-RF-Pulse-Design Spectral-Spatial-RF-Pulse-Design Public

    MATLAB 4 2

  4. Multiband-RF-pulse-Design Multiband-RF-pulse-Design Public

    Forked from shanghong/Multiband-RF-pulse-Design

    A framework for designing RF pulse with multiband magnitude profile, arbitrary phase profile and generalized flip angle, using convex optimization. Spectral sparsity was exploited to further optimi…

    MATLAB 1

Repositories

Showing 10 of 11 repositories
  • .github Public
    UCSF-HMTRC/.github’s past year of commit activity
    0 0 0 0 Updated Apr 5, 2024
  • Multiband-RF-pulse-Design Public Forked from shanghong/Multiband-RF-pulse-Design

    A framework for designing RF pulse with multiband magnitude profile, arbitrary phase profile and generalized flip angle, using convex optimization. Spectral sparsity was exploited to further optimize pulse performance, such as minimizing pulse duration, transition width and total energy with flexible trade-off. doi: 10.1016/j.jmr.2015.11.010

    UCSF-HMTRC/Multiband-RF-pulse-Design’s past year of commit activity
    MATLAB 1 9 0 0 Updated Jan 24, 2024
  • UCSF-HMTRC.github.io Public Forked from CloudCannon/base-jekyll-template

    HP C-13 Imaging Parameters v2

    UCSF-HMTRC/UCSF-HMTRC.github.io’s past year of commit activity
    HTML 0 MIT 202 0 0 Updated Mar 2, 2023
  • UCSF-HMTRC-v1.github.io Public template Forked from kitian616/jekyll-TeXt-theme

    HP C-13 Imaging Parameter Site - Jekyll theme

    UCSF-HMTRC/UCSF-HMTRC-v1.github.io’s past year of commit activity
    SCSS 0 MIT 2,604 0 0 Updated Feb 10, 2023
  • template-pintereso-bootstrap-jekyll Public Forked from wowthemesnet/template-pintereso-bootstrap-jekyll

    HMTRC Imaging Parameters v3

    UCSF-HMTRC/template-pintereso-bootstrap-jekyll’s past year of commit activity
    HTML 0 MIT 111 0 0 Updated Jan 7, 2023
  • sivic Public Forked from SIVICLab/sivic

    SIVIC is an open-source, standards-based software framework and application suite for processing and visualizing DICOM MR Spectroscopy data. Through the use of DICOM, SIVIC aims to facilitate the application of MRS in medical imaging studies. The SIVIC code repository lives on github but our user portal is on sourceforge.

    UCSF-HMTRC/sivic’s past year of commit activity
    C++ 1 14 0 0 Updated Nov 1, 2022
  • hp13c_EPI-hosvd_denoising Public
    UCSF-HMTRC/hp13c_EPI-hosvd_denoising’s past year of commit activity
    MATLAB 6 0 0 0 Updated Jun 27, 2022
  • mrhub-SIVIC Public Forked from ISMRM/mrhub

    Hub for open-source MR-related software

    UCSF-HMTRC/mrhub-SIVIC’s past year of commit activity
    CSS 0 43 0 0 Updated Apr 12, 2022
  • PV6-HPMR Public Forked from mda-mrsl/PV6-HPMR
    UCSF-HMTRC/PV6-HPMR’s past year of commit activity
    C 0 MIT 7 0 0 Updated Jan 11, 2020
  • Spectral-Spatial-RF-Pulse-Design Public
    UCSF-HMTRC/Spectral-Spatial-RF-Pulse-Design’s past year of commit activity
    MATLAB 4 BSD-3-Clause 2 0 0 Updated Feb 13, 2018
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