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# Mu Map
Repository for the code to replicate the paper of Shi et al. with our SPECT/CT Scanner.
| :-------------------- | :----------------------------: | :-------------------------------: |
| SPECT/CT Scanner | GE NM/CT 850 SPECT/CT | Siemens Symbia Intevo 16 SPECT/CT |
| Scan Arc | 180° | 208° |
| Angles | 60 | 34 |
| Energy Window Lower | 114-126 keV | 110-131 keV |
| Energy Window Upper | 126-155 keV | 131-152 keV |
| Dose | 15 mCi | ? |
| Reconstruction | OSEM (5 iterations, 4 subsets) | Siemens Conjugate Gradient |
| CT Energy | 120 kVp | ? |
| Attenuation Map Shape | (25-35)x64x64 | ? |
| Reconstruction Shape | 64x64x64 | 51x128x128 |
| Voxel Size | 6.8x6.8x6.8 mm³| 4.8x4.8x4.8 mm³ |
## References
* `Shi et al. "Deep learning-based attenuation map generation for myocardial perfusion SPECT". 2020 In: European Journal of Nuclear Medicine and Molecular Imaging 47.10`
* [DOI: 10.1007/s00259-020-04746-6](www.doi.org/10.1007/s00259-020-04746-6)
## Install
Install libraries for tomographic reconstruction:
### NiftyRec
* `mkdir libs`
* `cd libs`
* `git clone https://github.com/TomographyLab/NiftyRec`
* `cd NiftyRec`
* `git checkout 5329496`
* `cp README.md README.txt` - this file is needed by cmake
* `mkdir build`
* `cd build`
* `ccmake ..` - turn of the volume renderer
* `make -j 8`
* `make package`
* `sudo dpkg -i NiftyRec-3.1.0-Linux-x86_64.deb`
### TomoLab
Make sure your python virtual environment is active for this.
* `mkdir libs`
* `cd libs`
* `git clone https://github.com/TomographyLab/TomoLab`
* `git checkout 86b9a58`