Software
This is some of the software that I wrote over the years. It is a mix of a Python and C++. The level of documentation will vary from project to project. Recently I have been more rigorous in my documentation for commonly used python functions.
Documentation
This is some basic documentation for some of the more commonly functions I have written over the last year or so. This mostly serves for my reference since I always am forgetting the API.
A blurb I wrote on git documentation is here.
SLR Pulse Design
Shinnar-Le Roux (SLR) radiofrequency (RF) pulses are common on MRI. While many tools exist to design such pulses, these are often in Matlab. This is a version similar to the Pauly implementation, though the interface is written in Python and incorporates object-oriented design. Source and examples are here. The backend of this code is written in C/C++ and requires Boost 1.63 to compile (with the proper paths needing to be set in the Makefile). C++ code using the Boost Python/Numpy interfaces. This also requires an FIR pulse design toolbox I have designed.
FIR Tools for Python
While Scipy has many FIR tools that are common in Matlab, it lacks a Type II FIR least squares filter design. This toolbox includes this design. This toolbox also include a Parks-McCellan FIR filter tool as well as method to transform a linear phase filter to a minimum phase filter. This also requires Boost 1.63 to compile. Source and examples are given below.
EPG Simulation Tools for Python
This is an implementation for performing extended phase graph simulations in Python. This is heavily modeled after Brian Hargreaves’ Matlab EPG simulation code.
Bloch Simulation in C++
This software is primarily written in C++ with a Python interface. This is a relatively fast brute force Bloch simulation. This software allows the users to use custom RF pulses (SLR, VERSE, etc.) to accurately model rotations. Thus, this simulation accounts for RF non-idealities such as slice profile.
Code is forthcoming (after I clean it up a bit for public use).