REMMI — Resource for Experimental Magnetic resonance Microstructure Imaging
REMMI is a collection of toolboxes for microstructural imaging on small animal imaging systems. This work is supported by NIH Grant EB019980.
Use or Contribute?
Due to vendor licensing, several of these repositories are private. However, we are happy to provide access to anyone. Email Kevin Harkins or Mark Does for access.
REMMI—Matlab
REMMI-Matlab provides MATLAB routines for reconstruction and processing of quantitative microstructural datasets collected on Bruker and Agilent small animal MRI systems. The repository supports
- Quantitative T1 and T2 mapping
- Multi-exponential Relaxometry
- Selective inversion recovery magnetization transfer
- Diffusion tensor imaging
REMMI-Bruker
Pulse sequences for Bruker Paravision. These sequences were originally developed on PV6.0.1. There is currently partial support for PV6.0.0 and PV360. Note: This is a private repository. Email for access!
Sequences:
- remmiRARE — 2D and 3D acquisitions for diffusion, multiple spin echo, selective inversion recovery magnetization transfer imaging
- remmiFLASH — 2D and 3D imaging for multiple gradient echo imaging
- remmiWAVE — sequence for measuring gradient waveforms
REMMI—Agilent
Provides sequences for the Agilent/Varian VNMRJ platform. Note: This is a private repository. Email for access!
Sequences:
- mse3D — 3D multiple spin echo imaging
- mse2D — 2D multiple spin echo imaging
- rfse3d — 3D RARE sequence with support for selective inversion recovery magnetization transfer imaging
- rfse2d — 2D RARE sequence with support for selective inversion recovery magnetization transfer imaging
sample-holders
3D print files for mouse brain holders. Posted designs can hold 1, 4 or 6 mouse brains with RF coil size ranging from 20-40 mm.
documentation
Manuals for 3D printing, scanning, and sample code for image reconstruction and processing