A toolkit to generate MR sequence diagrams

Overview

mrsd: a toolkit to generate MR sequence diagrams

mrsd is a Python toolkit to generate MR sequence diagrams, as shown below for the basic FLASH sequence.

FLASH sequence diagram generated with mrsd

mrsd is based on Matplotlib and additionally requires numpy. The code which generated the previous diagram is available in the examples direction, and an excerpt is shown below.

figure, plot = matplotlib.pyplot.subplots()
diagram = mrsd.Diagram(
    plot, ["RF", "$G_{slice}$", "$G_{phase}$", "$G_{readout}$", "Signal"])

# Slice-selective pulse of the first TR
diagram.sinc_pulse("RF", 0, RF_duration, 1)
diagram.gradient("$G_{slice}$", *RF[0], selection)
diagram.idle(["$G_{phase}$", "$G_{readout}$", "Signal"], *RF[0])

# Dead time until the start of encoding
diagram.idle_all(RF[0][1], encoding[0])

# Encoding: rewind slice-selection gradient, run phase gradient, prephase
# read-out gradient
diagram.gradient("$G_{slice}$", *encoding, rewind)
diagram.stepped_gradient("$G_{phase}$", *encoding, 1)
diagram.gradient("$G_{readout}$", *encoding, prephasing)
diagram.idle(["RF", "Signal"], *encoding)

# Readout, centered on TE
diagram.gradient("$G_{readout}$", *readout, dephasing)
diagram.readout("Signal", *readout, +1)
diagram.idle(["RF", "$G_{slice}$", "$G_{phase}$"], *readout)

# Idle until end of TR
diagram.idle_all(readout[1], RF[1][0])

# Start of next TR
diagram.sinc_pulse("RF", TR, RF_duration, 1)
diagram.gradient("$G_{slice}$", *RF[1], selection)
diagram.idle(["$G_{phase}$", "$G_{readout}$", "Signal"], *RF[1])
diagram.idle_all(TR+RF_duration/2, TR+RF_duration)

# Add annotations: flip angles and TE/TR intervals
diagram.annotate("RF", 0.2, r"$\alpha$", 1)
diagram.annotate("RF", TR+0.2, r"$\alpha$", 1)
diagram.interval(0, TE, -1.5, "TE", 10)
diagram.interval(0, TR, -2.5, "TR", 10)
Owner
Julien Lamy
Julien Lamy
A python wrapper for creating and viewing effects for Matt Parker's christmas tree.

Christmas Tree Visualizer A python wrapper for creating and viewing effects for Matt Parker's christmas tree. Displays py or csv effect files and allo

4 Nov 22, 2022
Massively parallel self-organizing maps: accelerate training on multicore CPUs, GPUs, and clusters

Somoclu Somoclu is a massively parallel implementation of self-organizing maps. It exploits multicore CPUs, it is able to rely on MPI for distributing

Peter Wittek 239 Nov 10, 2022
China and India Population and GDP Visualization

China and India Population and GDP Visualization Historical Population Comparison between India and China This graph shows the population data of Indi

Nicolas De Mello 10 Oct 27, 2021
A deceptively simple plotting library for Streamlit

🍅 Plost A deceptively simple plotting library for Streamlit. Because you've been writing plots wrong all this time. Getting started pip install plost

Thiago Teixeira 192 Dec 29, 2022
Print matplotlib colors

mplcolors Tired of searching "matplotlib colors" every week/day/hour? This simple script displays them all conveniently right in your terminal emulato

Brandon Barker 32 Dec 13, 2022
Generate visualizations of GitHub user and repository statistics using GitHub Actions.

GitHub Stats Visualization Generate visualizations of GitHub user and repository statistics using GitHub Actions. This project is currently a work-in-

Aditya Thakekar 1 Jan 11, 2022
https://there.oughta.be/a/macro-keyboard

inkkeys Details and instructions can be found on https://there.oughta.be/a/macro-keyboard In contrast to most of my other projects, I decided to put t

Sebastian Staacks 209 Dec 21, 2022
A set of three functions, useful in geographical calculations of different sorts

GreatCircle A set of three functions, useful in geographical calculations of different sorts. Available for PHP, Python, Javascript and Ruby. Live dem

72 Sep 30, 2022
I'm doing Genuary, an aritifiacilly generated month to build code that make beautiful things

Genuary 2022 I'm doing Genuary, an aritifiacilly generated month to build code that make beautiful things. Every day there is a new prompt for making

Joaquín Feltes 1 Jan 10, 2022
Interactive Dashboard for Visualizing OSM Data Change

Dashboard and intuitive data downloader for more interactive experience with interpreting osm change data.

1 Feb 20, 2022
This repository contains a streaming Dataflow pipeline written in Python with Apache Beam, reading data from PubSub.

Sample streaming Dataflow pipeline written in Python This repository contains a streaming Dataflow pipeline written in Python with Apache Beam, readin

Israel Herraiz 9 Mar 18, 2022
flask extension for integration with the awesome pydantic package

Flask-Pydantic Flask extension for integration of the awesome pydantic package with Flask. Installation python3 -m pip install Flask-Pydantic Basics v

249 Jan 06, 2023
Sprint planner considering JIRA issues and google calendar meetings schedule.

Sprint planner Sprint planner is a Python script for planning your Jira tasks based on your calendar availability. Installation Use the package manage

Apptension 2 Dec 05, 2021
Data Visualization Guide for Presentations, Reports, and Dashboards

This is a highly practical and example-based guide on visually representing data in reports and dashboards.

Anton Zhiyanov 395 Dec 29, 2022
Simple Python interface for Graphviz

Simple Python interface for Graphviz

Sebastian Bank 1.3k Dec 26, 2022
ecoglib: visualization and statistics for high density microecog signals

ecoglib: visualization and statistics for high density microecog signals This library contains high-level analysis tools for "topos" and "chronos" asp

1 Nov 17, 2021
Automatically Visualize any dataset, any size with a single line of code. Created by Ram Seshadri. Collaborators Welcome. Permission Granted upon Request.

AutoViz Automatically Visualize any dataset, any size with a single line of code. AutoViz performs automatic visualization of any dataset with one lin

AutoViz and Auto_ViML 1k Jan 02, 2023
Write python locally, execute SQL in your data warehouse

RasgoQL Write python locally, execute SQL in your data warehouse ≪ Read the Docs · Join Our Slack » RasgoQL is a Python package that enables you to ea

Rasgo 265 Nov 21, 2022
NumPy and Pandas interface to Big Data

Blaze translates a subset of modified NumPy and Pandas-like syntax to databases and other computing systems. Blaze allows Python users a familiar inte

Blaze 3.1k Jan 01, 2023
NW 2022 Hackathon Project by Angelique Clara Hanzel, Aryan Sonik, Damien Fung, Ramit Brata Biswas

Spiral-Data-Visualizer NW 2022 Hackathon Project by Angelique Clara Hanzell, Aryan Sonik, Damien Fung, Ramit Brata Biswas Description This project vis

Damien Fung 2 Jan 16, 2022