List of open-source quantitative susceptibility mapping (QSM) MRI software packages and data.
Please open an issue or pull request if you believe any corrections or additions to the list should be made.
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Details
- Language: MATLAB
- License: MIT
- Description:
- Provides a GUI with other tools to create pipelines.
- Tools:
- MEDI toolbox
- STI suite
- FANSI toolbox
- SEGUE
- MRI susceptibility calculation methods
- ROMEO
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Details
- Language: MATLAB
- License: Academic-only, signup required
- Methods:
- Morphology Enabled Dipole Inversion (MEDI)
- Truncated singular value decomposition (TSVD)
- Truncated k-space division (TKD)
- Iterative SWIM (iSWIM)
- TV with Split-Bregmann (TVSB)
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Details
- Language: MATLAB
- License: MIT
- Methods:
- Total variation dipole inversion
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Berkin Bilgic's QSM software collection
Details
- Language: MATLAB
- License: Unknown
- Methods:
- Single-Step QSM with Total Generalized Variation regularization
- Fast Total Generalized Variation regularized QSM
- Reconstruction for Multi-orientation QSM and Susceptibility Tensor Imaging
- Single-Step QSM with l2-Regularization
- Fast l1-Regularized QSM with Magnitude Weighting and SHARP background filtering
- Closed-form l2-Regularized QSM
- l1- and l2-Regularized QSM and PDF background filtering
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Details
- Language: Python
- License: Unknown
- Methods:
- Total generalized variation
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Details
- Language: Docker and Singularity image bundles.
- Core QSM tools written in Python
- License: Unkown
- Methods:
- Total generalized variation
- Language: Docker and Singularity image bundles.
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Susceptibility Imaging Toolkit
Details
- Language: Python
- License: Unknown
- Methods:
- QSM inversion
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Details
- Language: MATLAB
- License: Non-commercial academic use only, email signup required
- Methods:
- Quantitative Susceptibility Mapping without spatial constraints
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Quantitative Susceptibility Mapping for MRI part 1
Details
- Language: MATLAB
- License: MIT
- Methods:
- Closed-form l2-Regularized QSM (Bilgic et al.)
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Quantitative Susceptibility Mapping for MRI part 2
Details
- Language: MATLAB
- License: MIT
- Methods:
- L1-regularized magnitude weighted QSM (Bilgic et al.)
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Details
- Language: MATLAB
- License: Unknown
- Methods:
- Single step total variation
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Details
- Language: Python
- License: Unknown
- Methods:
- Dipole inversion
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QSM L0 reconstruction algorithm
Details
- Language: MATLAB
- License: Unkown
- Methods:
- L0 reconstruction
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QSM reconstruction challenge 2016
Details
- Field strength: 3.0 Tesla
- Resolution: 1.06โmm
- Subject: Healthy volunteer
- Other:
- A reference susceptibility map computed using the susceptibility tensor imaging algorithm on data acquired at 12 head orientations.
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Details
- Human Brain Single Echo 2D
- Field strength: 3.0 Tesla
- Resolution: 1.8 x 1.8 x 3.0 mm3
- Subject: Human
- Human Brain Single Echo 3D
- Field strength: 3.0 Tesla
- Resolution: 1.25 x 1.25 x 2.0 mm3
- Subject: Human
- Human Brain Multi Echo 3D
- Field strength: 3.0 Tesla
- Resolution: 1.25 x 1.25 x 2.0 mm3
- Subject: Human
- Mouse Brain 3D
- Field strength: 9.4 Tesla
- Resolution: 1.0 x 1.0 x 2.0 um3
- Subject: Human
- Human Brain Single Echo 2D
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Details
- Field strength: Unkown
- Resolution: 0.9375 x 0.9375 x 2.0 mm3
- Subject: Human and simulation
- Other:
- Siemens and GE datasets
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Quantitative Susceptibility Mapping (QSM): Decoding MRI Data for a Tissue Magnetic Biomarker
Details
- Field strength: Unkown
- Resolution: 0.9375 x 0.93785 x 1.0 mm3
- Subject: Human and simulation
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Susceptibility Imaging Toolkit
Details
- Field strength: Unknown
- Resolution: Unknown
- Subject: Human