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Rerun all to add overview chapter
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@oliviaAB
oliviaAB committed Mar 13, 2024
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121 changes: 63 additions & 58 deletions docs/comparison.html
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131 changes: 68 additions & 63 deletions docs/data_import.html
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129 changes: 67 additions & 62 deletions docs/diablo.html
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123 changes: 64 additions & 59 deletions docs/evaluation.html
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87 changes: 46 additions & 41 deletions docs/example_dataset.html
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8 changes: 4 additions & 4 deletions docs/index.html
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Expand Up @@ -90,7 +90,7 @@
<script src="site_libs/quarto-search/fuse.min.js"></script>
<script src="site_libs/quarto-search/quarto-search.js"></script>
<meta name="quarto:offset" content="./">
<link href="./walkthrough.html" rel="next">
<link href="./overview.html" rel="next">
<script src="site_libs/quarto-html/quarto.js"></script>
<script src="site_libs/quarto-html/popper.min.js"></script>
<script src="site_libs/quarto-html/tippy.umd.min.js"></script>
Expand Down Expand Up @@ -153,7 +153,7 @@ <h1 class="quarto-secondary-nav-title">The <code>moiraine</code> R package user
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./walkthrough.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Integration with DIABLO</span></a>
<a href="./overview.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Overview of <code>moiraine</code></span></a>
</div>
</li>
<li class="sidebar-item">
Expand Down Expand Up @@ -504,8 +504,8 @@ <h1 class="title d-none d-lg-block">The <code>moiraine</code> R package user man
</script><nav class="page-navigation"><div class="nav-page nav-page-previous">
</div>
<div class="nav-page nav-page-next">
<a href="./walkthrough.html" class="pagination-link">
<span class="nav-page-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Integration with DIABLO</span></span> <i class="bi bi-arrow-right-short"></i>
<a href="./overview.html" class="pagination-link">
<span class="nav-page-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Overview of <code>moiraine</code></span></span> <i class="bi bi-arrow-right-short"></i>
</a>
</div>
</nav>
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113 changes: 59 additions & 54 deletions docs/inspecting_multidataset.html
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173 changes: 93 additions & 80 deletions docs/interpretation.html
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99 changes: 52 additions & 47 deletions docs/modifying_multidataset.html
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147 changes: 76 additions & 71 deletions docs/mofa.html
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109 changes: 57 additions & 52 deletions docs/prefiltering.html
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91 changes: 48 additions & 43 deletions docs/preprocessing.html
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33 changes: 19 additions & 14 deletions docs/references.html
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Expand Up @@ -122,7 +122,12 @@ <h1 class="quarto-secondary-nav-title">References</h1>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./example_dataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">The example dataset</span></a>
<a href="./overview.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Overview of <code>moiraine</code></span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./example_dataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">The example dataset</span></a>
</div>
</li>
<li class="sidebar-item sidebar-item-section">
Expand All @@ -135,27 +140,27 @@ <h1 class="quarto-secondary-nav-title">References</h1>
<ul id="quarto-sidebar-section-1" class="collapse list-unstyled sidebar-section depth1 show">
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./data_import.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Importing data</span></a>
<a href="./data_import.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Importing data</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./inspecting_multidataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Inspecting the <code>MultiDataSet</code> object</span></a>
<a href="./inspecting_multidataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Inspecting the <code>MultiDataSet</code> object</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./modifying_multidataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Modifying the <code>MultiDataSet</code> object</span></a>
<a href="./modifying_multidataset.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Modifying the <code>MultiDataSet</code> object</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./preprocessing.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Data pre-processing</span></a>
<a href="./preprocessing.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">Data pre-processing</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./prefiltering.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">Dataset pre-filtering</span></a>
<a href="./prefiltering.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">Dataset pre-filtering</span></a>
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</ul>
Expand All @@ -170,17 +175,17 @@ <h1 class="quarto-secondary-nav-title">References</h1>
<ul id="quarto-sidebar-section-2" class="collapse list-unstyled sidebar-section depth1 show">
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./spls.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">Integration with sPLS</span></a>
<a href="./spls.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">8</span>&nbsp; <span class="chapter-title">Integration with sPLS</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./so2pls.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">8</span>&nbsp; <span class="chapter-title">Integration with sO2PLS</span></a>
<a href="./so2pls.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">9</span>&nbsp; <span class="chapter-title">Integration with sO2PLS</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./mofa.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">9</span>&nbsp; <span class="chapter-title">Integration with MOFA</span></a>
<a href="./mofa.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">10</span>&nbsp; <span class="chapter-title">Integration with MOFA</span></a>
</div>
</li>
</ul>
Expand All @@ -195,7 +200,7 @@ <h1 class="quarto-secondary-nav-title">References</h1>
<ul id="quarto-sidebar-section-3" class="collapse list-unstyled sidebar-section depth1 show">
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./diablo.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">10</span>&nbsp; <span class="chapter-title">Integration with DIABLO</span></a>
<a href="./diablo.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">11</span>&nbsp; <span class="chapter-title">Integration with DIABLO</span></a>
</div>
</li>
</ul>
Expand All @@ -210,17 +215,17 @@ <h1 class="quarto-secondary-nav-title">References</h1>
<ul id="quarto-sidebar-section-4" class="collapse list-unstyled sidebar-section depth1 show">
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./interpretation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">11</span>&nbsp; <span class="chapter-title">Interpreting the integration results</span></a>
<a href="./interpretation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">12</span>&nbsp; <span class="chapter-title">Interpreting the integration results</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./evaluation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">12</span>&nbsp; <span class="chapter-title">Evaluating the integration results</span></a>
<a href="./evaluation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">13</span>&nbsp; <span class="chapter-title">Evaluating the integration results</span></a>
</div>
</li>
<li class="sidebar-item">
<div class="sidebar-item-container">
<a href="./comparison.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">13</span>&nbsp; <span class="chapter-title">Comparing the integration results</span></a>
<a href="./comparison.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">14</span>&nbsp; <span class="chapter-title">Comparing the integration results</span></a>
</div>
</li>
</ul>
Expand Down Expand Up @@ -452,7 +457,7 @@ <h1 class="title d-none d-lg-block">References</h1>
<nav class="page-navigation">
<div class="nav-page nav-page-previous">
<a href="./comparison.html" class="pagination-link">
<i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">13</span>&nbsp; <span class="chapter-title">Comparing the integration results</span></span>
<i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">14</span>&nbsp; <span class="chapter-title">Comparing the integration results</span></span>
</a>
</div>
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