This project aims to create a standardized library of basic and advanced data processing classes in the most widely used programming languages. The foundational building blocks of this library will be the basic MRS processing steps (zero-filling, line-broadening, concatenating and splitting transients, etc.). As the library grows, more complex methods will hopefully be incorporated.

I have included one single-voxel test file (Siemens short-TE PRESS; in this repository.

There are several additional example data in the folder 'examples' under https://github.com/wtclarke/mrs_nifti_standard/tree/master/example_data.

MATLAB: https://github.com/schorschinho/nifti-mrs-matlab (you can use the svs_preprocessed.nii.gz file in this repository!) Python: https://github.com/wtclarke/nifti_mrs_tools R: https://martin3141.github.io/spant/ & https://github.com/jonclayden/RNifti/

NIfTI-MRS Data Standard Repository NIfTI-MRS Paper

Will Clarke already has a nice array of Python tools acting on NIfTI-MRS objects: https://github.com/wtclarke/nifti_mrs_tools/tree/master/src/mrs_tools FID-A comes with a ton of functions that can serve as reference: https://github.com/CIC-methods/FID-A Osprey is built on FID-A, but has a lot of additional customized functions: https://github.com/schorschinho/osprey Martin Wilson's spant in R has NIfTI-MRS read/write functions: https://martin3141.github.io/spant/

These methods/functions take a NIfTI-MRS file (.nii) and get them into the workspace of your particular language so you can operate on the data. (And after you're done, you also want to save them back into a.nii file!).

How to load NIfTI-MRS data in MATLAB: https://github.com/schorschinho/nifti-mrs-matlab (you can use the svs_preprocessed.nii.gz file in this repository!) Will Clarke's Python NIfTI-MRS tools build on a customized loader

These methods/functions change the data themselves in a certain way.

• zero-th order (in degrees or radians)
• first order (in degrees per ppm or radians per ppm) with the chosen pivot point

• Exponential (Lorentzian)
• Gaussian

• in the time domain (based on indices or physical time)
• in the frequency domain (based on indices or ppm)

• Warnings if the other dimensions don't match

• time domain
• frequency domain
• arguments: plot range
• if multiple dimensions, which one?

• Time- or frequency-domain display
• Select dimensions to display
• Single transients or means across a certain dimension
• Flexible x and y scaling
• Display header and extended header info
• Overlay with structural