tractography

add fiber tractography tools

Update of spar/sdat export

bug fix in NNLLS
changes in jcoupling and spectra tools.

Bugfix in spectra tools

fixed some issues with the CSI plotting in CSI interface

Performance updates

updates to denoise and spectra tools.
updated help index

added CSI interface

Added a GUI for CSI processing and plotting.

minor performance updates.

Added reconstruction and spectro toolboxes

SpectroTools
- Fitting spectra using a set of basis functions.
- Phase correction and line-width optimization.
- Basic plotting and visualization.
- Automatic 0th and 1st order phase correction using Henkel matrix SVD.
- baseline correction
- CSI data visualization.

Reconstruction Tools
- Basic algorithms for complex coil combination for spectra data including RSS, Roemer, WSVD.
- Simple Image reconstruction (MS-2D and 3D reconstruction)
- CSI data reconstruction
- reading Philips *.list and *.data files.
- Hamming filtering.

Perfomance updates and bug fixes

• performance update tensor Calc
• update Jcoupling sim, added variable te for TSE sym
• added NormalizeOverlap for JoinSets
• changes to dixon fitting
• improvements in T2EPG to include water component (WIP)

cross platform compatibility and new documentation

Update to Wolfram mathematica version 12.0.

A full rewrite of file handling and external dependencies to allow better cross platform compatibility (Mac, Unix, and Windows).

Included more and new testing and demo data and examples.

Updated the package loader to allow monitoring of package loading and prevent pollution of the Global environment.

Updated the EPG fitting framework.

Added online documentation and website https://mfroeling.github.io/QMRITools/.

Release of version 2.0 of QMRITools

A full refactor of the DTITools toolbox.

Now includes test and demo data.

many changes and new features

v1.9.0

Bug fixes in nii and elastix