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ads_dockerfile

advent

Advent of Code

airway-diffusion-mri-simulations

Simulates MR diffusion of hyperpolarized gases (e.g. 129Xe) in a budded cylinder airway model using a finite difference method.

anat-processing

Pipeline to process anatomical data, including microstructure metrics from DWI and MT data

b1paper_analysis

b1t1qmt-simulations

binder_test

blank

bloch-seg-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.

bulgariansolitaire

BulgarianSolitaire is a game simulator in python for the mathematical problem introduced by Martin Gardner in 1983.

codespace_template

deeplearning

Exercises that I wrote to supplement the Deep Learning (Goodfellow et al.) textbook during my read-through.

girfreco.jl

An Open-Source End-to-End Pipeline for Spiral Magnetic Resonance Image (MRI) Reconstruction in Julia

gold-standard-inversion-recovery-t1-mapping

Joelle Barral's gold standard inversion recovery T1 mapping package

ilumr-courseware

Courseware for the ilumr educational MRI system

ivadomed

Repository on the collaborative IVADO medical imaging project between the Mila and NeuroPoly labs.

mathieuboudreau

matlab_tests

This repository provides a working example of Matlab's testing framework using classes.

mrm_analysis

neurolibre-bpt_bcg

Source code for a Neurolibre-ready Jupyter Book

orca-plotly-dockerfile

Dockerfile to run Plotly's Orca on MyBinder

pdf_parser

Script to parse a folder of PDFs for certain keywords. Example in notebook are for open source related keywords.

phd_paper_qmt_optimization

pipelines-jupyter-book

pulseq

Open source framework for pulse sequences

pymincheader

pyMincHeader is a tool to fetch mincheader information in python.

qmt-optimization

Quantitative Magnetization Transfer MRI Optimization Toolbox

qmt-paper-sensivity-analysis

qmtlab_mni_legacy

qMTLab provides a framework for standardizing the validation and fitting of qMT data. The software package is developed and will be made freely available, at the ISMRM 2014 conference, to the MR community and is hoped to become a valuable tool for future qMT studies, leading the way toward fast, robust and clinically feasible qMT protocols.

qsm-tools

List of open-source quantitative susceptibility mapping (QSM) MRI software packages and data