Commit 15f8ef19 authored by Saad Jbabdi's avatar Saad Jbabdi
Browse files

tyding up

parent 016080b8
...@@ -18,7 +18,7 @@ To get the packaged example data, make sure [git-lfs](https://git-lfs.github.com ...@@ -18,7 +18,7 @@ To get the packaged example data, make sure [git-lfs](https://git-lfs.github.com
pip install spec2nii pip install spec2nii
After installation see the [quick start guide](https://users.fmrib.ox.ac.uk/~wclarke/fsl_mrs/userdoc/quick_start.html). After installation see the [quick start guide](https://users.fmrib.ox.ac.uk/~saad/fsl_mrs/html/quick_start.html).
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...@@ -27,11 +27,11 @@ After installation see the [quick start guide](https://users.fmrib.ox.ac.uk/~wcl ...@@ -27,11 +27,11 @@ After installation see the [quick start guide](https://users.fmrib.ox.ac.uk/~wcl
#### Scripts: #### Scripts:
- **fsl\_mrs** - **fsl\_mrs**
: fit a single spectrum : fit a single voxel spectroscopy (SVS) spectrum
- **fsl\_mrsi** - **fsl\_mrsi**
: fit a 3D volume of 1D spectra : fit a 3D volume of 1D spectra
- **fsl\_mrs\_proc** - **fsl\_mrs\_proc**
: pre-processing (coil combination, averaging, eddy-current correction) : pre-processing (coil combination, averaging, phase correction, outlier rejection, water suppression, eddy-current correction)
- **fsl\_mrs\_preproc** - **fsl\_mrs\_preproc**
: Pre-packaged processing for non-edited SVS. : Pre-packaged processing for non-edited SVS.
- **fsl\_mrs\_sim** - **fsl\_mrs\_sim**
...@@ -49,7 +49,7 @@ For each of the wrapper scripts above, simply type `<name_of_script> --help` to ...@@ -49,7 +49,7 @@ For each of the wrapper scripts above, simply type `<name_of_script> --help` to
Example command-line usage is demonstrated in the packaged [Jupyter Notebook](https://git.fmrib.ox.ac.uk/saad/fsl_mrs/-/blob/master/example_usage/Example%20SVS%20processing%20-%20command-line.ipynb.). Example command-line usage is demonstrated in the packaged [Jupyter Notebook](https://git.fmrib.ox.ac.uk/saad/fsl_mrs/-/blob/master/example_usage/Example%20SVS%20processing%20-%20command-line.ipynb.).
Documentation can be found online [here](https://users.fmrib.ox.ac.uk/~wclarke/fsl_mrs/userdoc/index.html). Documentation can be found online [here](https://users.fmrib.ox.ac.uk/~saad/fsl_mrs/html/index.html).
### File types ### File types
...@@ -67,7 +67,9 @@ If you don't want to use the wrapper scripts, you can use the python modules dir ...@@ -67,7 +67,9 @@ If you don't want to use the wrapper scripts, you can use the python modules dir
If you use FSL-MRS in your research please cite: If you use FSL-MRS in your research please cite:
Please see the LICENSE file for licensing information. Clarke WT, Jbabdi S. FSL-MRS: An end-to-end spectroscopy analysis package. Biorxiv 2020
Please see the [LICENSE](https://git.fmrib.ox.ac.uk/saad/fsl_mrs/-/blob/master/LICENSE) file for licensing information.
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