- Sequence programming
- Complete systems
- Other hardware (MR)
- Other hardware (non-MR)
- Lab equipment
- Image processing/visualization
- Lab software
- image distortion
- machine Learning
- Stable release
This code repository implements an algorithm that can perform accurate PRF-shift thermometry in tissues containing up to 90% fat and also correct errors due to motion, respiration, and scanner drift, in a real-time compatible manner. A numerical phantom simulator is provided as a demo for the algorithm.
PowerGrid is an accelerated, open source, freely available toolkit for iterative reconstruction supporting non-Cartesian trajectories. Using high level compiler directives, GPU accelerated Fourier transform operators were implemented in a high level syntax designed to correlate with the popular Image Reconstruction Toolbox (IRT).
openEMS is a free and open electromagnetic field solver using the FDTD method. Matlab or Octave are used as an easy and flexible scripting interface.
A prototype MATLAB open source software for the fast electromagnetic analysis of MRI systems.
This project proposes a hybrid system based on a single‐element ultrasound transducer and an MR scanner to help boost temporal resolution in real‐time MRI.
An MRI compatible phantom that simulates the respiration of a human subject in an automated way. A pressure probe is used in order to communicate in continuous time to Matlab the evolution of the respiratory cycle of the subject.
This GPA originated from a collaboration with Jason Stockmann (MGH Harvard). The device can drive up to 4 channels with max 10 A. It is controlled via a single SPI galvanically isolated connection that is also used to read information from the current sensors. Sample code for an Arduino is given that shows how to perform a calibration, set...
A collection of software tools developed to support clinical neuromodeling, particularly computational psychiatry, computational neurology, and computational psychosomatics.
A software for computational neuroanatomy with focus on diffusion magnetic resonance imaging (dMRI) analysis. It implements a broad range of algorithms for denoising, registration, reconstruction, tracking, clustering, visualization, and statistical analysis of MRI data.
OpenICE is an initiative to create a community implementation of an Integrated Clinical Environment. The initiative encompasses not only software implementation but also an architecture for a wider clinical ecosystem to enable new avenues of clinical research. OpenICE seeks to integrate an inclusive framework of healthcare devices and clinical applications to existing Healthcare IT ecosystems.
Spinal Cord Toolbox is a comprehensive software for the processing and analysis of multiparametric MRI data of the spinal cord.
Advanced toolbox for design and analysis of radiofrequency (RF) pulses, and processing of magnetic resonance spectroscopy data.
A framework for simulating low-field proton-density weighted MRI acquisitions based on high-field acquisitions, which could be used to predict the minimum B0 field strength requirements for MRI techniques. This framework would be particularly useful in the evaluation of de-noising and constrained reconstruction techniques.
This toolbox optimizes the acquisition protocols for spoiled gradient echo qMT sensitivity against noise and also sensitivity-regularization for robustness of a qMT parameter-of-interest.
This project describes the construction of a 27 cm diameter, 50 cm long homogeneous Halbach array magnet. It consists of 23 rings, each with two layers of 12x12x12 permanent magnets. Design files are provided for those wanting to laser cut, CNC mill, or water-jet cut the positions of the magnets. For different-sized magnets, a genetic algorithm for homogeneity optimization...
QMRITools is written in Mathematica using Wolfram Workbench and Eclipse and contains a collection of tools and functions for processing quantitative MRI data.
The Anser project provides an open-source implementation for electromagnetic tracking (EMT) with particular application to image-guided interventions. This work provides implementation schematics for an EMT system which relies on low-cost acquisition and demodulation techniques using both National Instruments and Arduino hardware alongside MATLAB support code.
The spectrometer or software defined radio is capable of producing arbitrary shaped RF-pulses, un-/blanking the RFPA, recording acquired data and controlling a rotating gradient field. Pulse length, amplitude, readout-length and –delay can be chosen freely. The RFPA successfully amplied rect- and sinc-pulses generated by the spectrometer. A signal amplitude of 500mV at the input leads to an output voltage level of...
OCRA stands for Open-source Console for Real-time Acquisition. It is a low-cost, open-source console (hardware controller) for MRI. Conventional MRI consoles may be high cost, closed-source, and inflexible, in that it is not possible to change acquisition parameters once the scan is started. In contrast, OCRA is under $500, open-source, and capable of real-time updates: the console can make...
Gadgetron is an open source framework for medical image reconstruction. It consists of two main components: First, a modular, high performance framework for streaming data processing through a set of modules or “Gadgets”. Second, it provides a set of tool-boxes for common image reconstruction tools, data structures, iterative solvers, and GPU components.
A high dynamic range image processing algorithm which can offer enhanced contrast and feature preservation for multichannel and multisequence MRI.
The hMRI-toolbox is an easy-to-use open-source and flexible tool, for qMRI data handling and processing. It allows the estimation of high-quality multi-parameter qMRI maps (longitudinal and effective transverse relaxation rates R1 and R2*, proton density PD and magnetisation transfer MT saturation), followed by spatial registration in common space for statistical analysis.
This modular system provides bias tees for first stage RF preamplifiers, second stage amplification, and programmable attenuation for use in MR scanners and other RF signal applications (at least up to several hundred MHz). Accommodates 32 channels and can be extended by daisy-chaining additional boards.
ODIN is a C++ software framework to develop and simulate magnetic resonance sequences.
gr-MRI is a software package using GNU Radio that enables the development of custom MRI spectrometers using off-the-shelf software-defined radios.
Software application and development platform for medical image visualization, analysis, quantification, segmentation, and registration. Supports all imaging modalities, wide range of data types (surface and volumetric meshes, textured surface scans, spectrum data, points, lines, curves, tables, etc.), time sequences of any data sets, real-time hardware device interfaces, and specialized modules for a wide range of application areas (diffusion imaging,...
Direct signal control provides reduced transmision field inhomogeneity allowing to recover regions of low signal without increasing imaging time or interecho spacing.
A user friendly software environment for implementing MRI pulse sequences and, exporting them to actual MRI scanners.
The Berkeley Advanced Reconstruction Toolbox (BART) is a free and open-source image-reconstruction framework for Computational Magnetic Resonance Imaging. It consists of a programming library and a toolbox of command-line programs. The library provides common operations on multi-dimensional arrays, Fourier and wavelet transforms, as well as generic implementations of iterative optimization algorithms.