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<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Home · MRIBuilder.jl</title><meta name="title" content="Home · MRIBuilder.jl"/><meta property="og:title" content="Home · MRIBuilder.jl"/><meta property="twitter:title" content="Home · MRIBuilder.jl"/><meta name="description" content="Documentation for MRIBuilder.jl: an MRI sequence builder in Julia"/><meta property="og:description" content="Documentation for MRIBuilder.jl: an MRI sequence builder in Julia"/><meta property="twitter:description" content="Documentation for MRIBuilder.jl: an MRI sequence builder in Julia"/><meta property="og:url" content="https://open.win.ox.ac.uk/pages/ndcn0236/mribuilder.jl/stable/"/><meta property="twitter:url" content="https://open.win.ox.ac.uk/pages/ndcn0236/mribuilder.jl/stable/"/><link rel="canonical" href="https://open.win.ox.ac.uk/pages/ndcn0236/mribuilder.jl/stable/"/><script data-outdated-warner 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source"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><h1 id="MRIBuilder"><a class="docs-heading-anchor" href="#MRIBuilder">MRIBuilder</a><a id="MRIBuilder-1"></a><a class="docs-heading-anchor-permalink" href="#MRIBuilder" title="Permalink"></a></h1><p><a href="https://git.fmrib.ox.ac.uk/ndcn0236/mribuilder.jl">MRIBuilder</a> allows for the creation and optimisation of MRI sequences within <a href="https://julialang.org">Julia</a>.</p><p>Depending on your application, there are several levels at which you can interact with MRIBuilder. The ones lower down require more expertise with Julia and the internals of MRIBuilder:</p><ol><li>Many sequences have already been implemented and can be obtained through a simple function call (see <a href="implemented_sequences/#implemented_sequences">Using implemented sequences</a>).</li><li>New sequences can be created out of pre-defined sequence components and by defining sequence-specific metrics (see <a href="defining_sequence/#defining_sequences">Defining new sequences</a>).</li><li>Finally, one can actually define new sequence components (not documented yet).</li></ol><p>Typically, the resulting sequence will only cover a single repetition time (TR). MRIBuilder enables the concatenation of single-TR sequences into a multi-TR sequence. During these repeats minor adjustments can be made to the single-TR sequence. This can be used to allow different repeats to image different lines in k-space or excite different slices (see <a href="adjust_sequences/#adjust_sequences">Post-hoc adjustment of sequences</a>).</p><p>The signal formation for the resulting sequence can be predicted using <a href="https://open.win.ox.ac.uk/pages/ndcn0236/mcmrsimulator.jl/stable">MCMRSimulator</a> given some representation of the imaged tissue. MRIBuilder can be used to read/write to the <a href="https://pulseq.github.io">pulseq</a> MR sequence file format. This can be used to run the sequence on MRI scanners as described in the <a href="https://pulseq.github.io">pulseq homepage</a>. Rather than just directly running the sequences from this library on the scanner, we strongly recommend to load it using the <a href="https://github.com/pulseq/pulseq">MATLAB pulseq</a> or <a href="https://github.com/imr-framework/pypulseq">python pypulseq</a> first as these libraries run additional checks!</p><h2 id="Installation"><a class="docs-heading-anchor" href="#Installation">Installation</a><a id="Installation-1"></a><a class="docs-heading-anchor-permalink" href="#Installation" title="Permalink"></a></h2><p>It can be run from the command line using the Julia REPL, from a Julia script, or in a <a href="https://jupyter.org">Jupyter notebook</a>. Like any Julia package, Julia can be installed using the built-in <a href="https://pkgdocs.julialang.org/v1/">Julia package manager</a>:</p><pre><code class="nohighlight hljs">pkg&gt; add https://git.fmrib.ox.ac.uk/ndcn0236/mribuilder.jl.git</code></pre></article><nav class="docs-footer"><a class="docs-footer-nextpage" href="sequence_optimisation/">Optimisation »</a><div class="flexbox-break"></div></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.7.0 on <span class="colophon-date" title="Friday 18 October 2024 15:04">Friday 18 October 2024</span>. 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