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7t-dsc-mri-toolbox

This toolbox provides functions and pipeline to process Dynamic Susceptibility Contrast MRI data acquired at 7T. In particular, code is provided to correct for effective TR due to cardiac gating and breathing frequency filtering.

advanced_fmri_course

List of ressources and practicals used for the fMRI data analysis course of UoB (UK) (2014-2017)

advanced_neuro_recon_book_chapter

Code to reproduce the experiments for the image reconstruction chapter of the textbook Advanced Neuro MR Techniques and Applications

afni

Official AFNI source and documentation

am_multiband

Simple optimization to compute slice phase offsets for multi-band RF pulses

amico

Accelerated Microstructure Imaging via Convex Optimization (AMICO) from diffusion MRI data

anncest

This toolbox contains Matlab files that implement the ANNCEST MRI

aslprep

attr.mat

Yet another function argument parsing tool for matlab.

b1_afi

qMRPullseq for qMRLab module `b1_afi`

b1_correction

bart

BART: Toolbox for Computational Magnetic Resonance Imaging

bhs_project_dmri

Diffuision MRI reconstruction, MRI Visualization, MRI Analyzation, Machine Learning

bloch-sieg-pulse-tools

Some miscellaneous tools to generate Bloch-Siegert pulses and calculate the Kbs constant from a pulse file that was used during my PhD. *.pta files were for Siemens scanner, not sure if they are compatible with other vendors.

bloch_flow_mt

Bloch-McConnell-Flow equations

bm_sim_fit

Bloch-McConnell simulation (full numerical)

brain-tumor-mri-dataset

Utilities to download and load an MRI brain tumor dataset with Python, providing 2D slices, tumor masks and tumor classes.

braingraph

Graph theory analysis of brain MRI data

cardiac-diffusion-mri

Diffusion weighted imaging (DWI) and diffusion tensor imaging (DTI) in the heart (myocardium)

cardiac_rf_shimming

Constrained RF Shimming Code

cest

Codes and materials for CEST MRI data analysis

cest_eval

cmdint

CmdInterface enables detailed logging of command line and python experiments in a very lightweight manner (coding wise). It wraps your command line or python function calls in a few lines of python code and logs everything you might need to reproduce the experiment later on or to simply check what you did a couple of years ago.

code-gradient-design

Optimizations for Convex Optimized Diffusion Encoding (CODE) for Diffusion Weighted MRI (DWI)

coil_simulation

Matlab-based software to simulation B1 field for several geometries of coils.

coil_simulation_web

web version of program for simulating RF coil array for MRI

complexsvdshrinkagedwi

Tools for complex DWI denoising using SVD shrinkage

cs_moco_lab

Compressed Sensing and Motion Correction LAB: An MR acquisition and reconstruction system

csphantom

compressed sensing MRI phantom

csreconstruction-for-spen-mri

This toolbox contains Matlab files that implement the SR reconstruction method described in paper: L. Chen, et al, J. Magn. Reson., 237 (2013) 115-124.