Commit 18f8211f authored by Ludovica Griffanti's avatar Ludovica Griffanti
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Update README.md

parent b51ae559
# C-MORE QSM pipeline
* `**QSM.m**`
This script is the main QSM processing pipeline. `weightedCombination.m` and `phasevariance_nonlin.m` are supporting functions.
* `**14_FIRST_IDPs.sh**`
This script is to calculate 14 subcortical (FSL-FIRST segmented) IDPs following UKB pipeline and to extract CSF voxels.
* `**Mix_Mod_CSF.py**`
This script is to calculate CSF susceptibility values for QSM referencing.
* `QSM.m`: This script is the main QSM processing pipeline. `weightedCombination.m` and `phasevariance_nonlin.m` are supporting functions.
* `14_FIRST_IDPs.sh` : This script is to calculate 14 subcortical (FSL-FIRST segmented) IDPs following UKB pipeline and to extract CSF voxels.
* `Mix_Mod_CSF.py` : This script is to calculate CSF susceptibility values for QSM referencing.
## Requirements
MATLAB R2017b or higher
STI Suite - https://people.eecs.berkeley.edu/~chunlei.liu/software.html
FSL - https://fsl.fmrib.ox.ac.uk/fsldownloads_registration
Mixture Modelling tool - https://github.com/allera/One_Dim_Mixture_Models
- MATLAB R2017b or higher
- STI Suite - https://people.eecs.berkeley.edu/~chunlei.liu/software.html
- FSL - https://fsl.fmrib.ox.ac.uk/fsldownloads_registration
- Mixture Modelling tool - https://github.com/allera/One_Dim_Mixture_Models
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