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graspologic
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0.0.0
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<p class="caption" role="heading"><span class="caption-text">Documentation</span></p>
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<li class="toctree-l1"><a class="reference internal" href="license.html">License</a></li>
<li class="toctree-l1"><a class="reference internal" href="reference/install.html">Install</a><ul>
<li class="toctree-l2"><a class="reference internal" href="reference/install.html#install-the-released-version">Install the released version</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/install.html#python-package-dependencies">Python package dependencies</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/install.html#hardware-requirements">Hardware requirements</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/install.html#os-requirements">OS Requirements</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/install.html#testing">Testing</a></li>
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<li class="toctree-l1"><a class="reference internal" href="reference/cli.html">CLI</a></li>
<li class="toctree-l1"><a class="reference internal" href="reference/contributing.html">Contributing to graspologic</a></li>
<li class="toctree-l1"><a class="reference internal" href="reference/in-the-wild.html">graspologic in the wild</a><ul>
<li class="toctree-l2"><a class="reference internal" href="reference/in-the-wild.html#papers">Papers</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/in-the-wild.html#educational-materials">Educational materials</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/in-the-wild.html#blog-posts">Blog posts</a></li>
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<li class="toctree-l1"><a class="reference internal" href="reference/release.html">Release Log</a><ul>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-3-3-0">graspologic 3.3.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-3-2-0">graspologic 3.2.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-3-1-0">graspologic 3.1.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-3-0-0">graspologic 3.0.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-2-0-1">graspologic 2.0.1</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-2-0-0">graspologic 2.0.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-1-0-0">graspologic 1.0.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-0-3-0">graspologic 0.3.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-0-2-0">graspologic 0.2.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#graspologic-0-1-0">graspologic 0.1.0</a></li>
<li class="toctree-l2"><a class="reference internal" href="reference/release.html#previous-graspy-releases">Previous GraSPy Releases</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/release/graspy_releases.html">GraSPy Release Log</a></li>
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<li class="toctree-l1"><a class="reference internal" href="reference/reference/index.html">Reference</a><ul>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/align.html">Aligning</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/align.html#sign-flips">Sign flips</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/align.html#orthogonal-procrustes">Orthogonal Procrustes</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/align.html#seedless-procrustes">Seedless Procrustes</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/cluster.html">Clustering</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/cluster.html#k-means-clustering">K-Means Clustering</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/cluster.html#gaussian-mixture-models-clustering">Gaussian Mixture Models Clustering</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/cluster.html#hierarchical-clustering">Hierarchical Clustering</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/datasets.html">Datasets</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/datasets.html#drosophila-larval-mushroom-body">Drosophila larval mushroom body</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/datasets.html#duke-mouse-whole-brain-connectomes">Duke mouse whole-brain connectomes</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/embed.html">Embedding</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/embed.html#decomposition">Decomposition</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/embed.html#single-graph-embedding">Single graph embedding</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/embed.html#multiple-graph-embedding">Multiple graph embedding</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/embed.html#dissimilarity-graph-embedding">Dissimilarity graph embedding</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/inference.html">Inference</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/inference.html#two-graph-hypothesis-testing">Two-graph hypothesis testing</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/layouts.html">Layouts</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/layouts.html#nodeposition">NodePosition</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/layouts.html#automatic-graph-layout">Automatic Graph Layout</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/layouts.html#colors">Colors</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/layouts.html#rendering">Rendering</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/match.html">Matching</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/match.html#graph-matching">Graph Matching</a></li>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/models.html">Models</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/models.html#erdos-reyni-models">Erdos-Reyni models</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/models.html#stochastic-block-models">Stochastic block models</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/models.html#latent-position-models">Latent position models</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/models.html#edge-swapping-configuration-models">Edge swapping (configuration models)</a></li>
</ul>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/nominate.html">Nomination</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/nominate.html#spectral-vertex-nomination">Spectral Vertex Nomination</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/nominate.html#vertex-nomination-via-sgm">Vertex Nomination via SGM</a></li>
</ul>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/partition.html">Partition</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/partition.html#modularity-and-component-modularity">Modularity and Component Modularity</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/partition.html#leiden-and-hierarchical-leiden">Leiden and Hierarchical Leiden</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/preconditions.html">Preconditions</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/preconditions.html#graspologic.preconditions.check_argument_types"><code class="docutils literal notranslate"><span class="pre">check_argument_types()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/preconditions.html#graspologic.preconditions.check_optional_argument_types"><code class="docutils literal notranslate"><span class="pre">check_optional_argument_types()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/preconditions.html#graspologic.preconditions.check_argument"><code class="docutils literal notranslate"><span class="pre">check_argument()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/preconditions.html#graspologic.preconditions.is_real_weighted"><code class="docutils literal notranslate"><span class="pre">is_real_weighted()</span></code></a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/pipeline.html">Pipeline</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/pipeline.html#graphbuilder">GraphBuilder</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/pipeline.html#module-graspologic.pipeline.embed">Embed</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/plotting.html">Plotting</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#heatmap">Heatmap</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#gridplot">Gridplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#pairplot">Pairplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#degreeplot">Degreeplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#edgeplot">Edgeplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#screeplot">Screeplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#adjplot">Adjplot</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/plotting.html#matrixplot">Matrixplot</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/preprocessing.html">Preprocessing</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/preprocessing.html#graph-cuts">Graph Cuts</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="reference/reference/simulations.html">Simulations</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.er_np"><code class="docutils literal notranslate"><span class="pre">er_np()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.er_nm"><code class="docutils literal notranslate"><span class="pre">er_nm()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.sbm"><code class="docutils literal notranslate"><span class="pre">sbm()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.rdpg"><code class="docutils literal notranslate"><span class="pre">rdpg()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.er_corr"><code class="docutils literal notranslate"><span class="pre">er_corr()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.sbm_corr"><code class="docutils literal notranslate"><span class="pre">sbm_corr()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.rdpg_corr"><code class="docutils literal notranslate"><span class="pre">rdpg_corr()</span></code></a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/simulations.html#graspologic.simulations.mmsbm"><code class="docutils literal notranslate"><span class="pre">mmsbm()</span></code></a></li>
</ul>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/subgraph.html">Subgraph</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/subgraph.html#signal-subgraph-estimators">Signal-Subgraph Estimators</a></li>
</ul>
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<li class="toctree-l2"><a class="reference internal" href="reference/reference/utils.html">Utility</a><ul>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/utils.html#transformations">Transformations</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/utils.html#connected-components">Connected Components</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/utils.html#io">IO</a></li>
<li class="toctree-l3"><a class="reference internal" href="reference/reference/utils.html#other">Other</a></li>
</ul>
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</ul>
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<li class="toctree-l1"><a class="reference internal" href="tutorials/index.html">Tutorials</a><ul>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#models">Models</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/models/models.html">Random Graph Models</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/models/edge_swaps.html">Degree Preserving Edge Swaps</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#simulations">Simulations</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/erdos_renyi.html">Erdos-Renyi (ER) Model</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/sbm.html">Stochastic Block Model (SBM)</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/mmsbm.html">Mixed Membership Stochastic Blockmodel (MMSBM)</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/rdpg.html">Random Dot Product Graph (RDPG) Model</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/corr.html">Correlated Graph Pairs</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/simulations/rdpg_corr.html">Correlated Random Dot Product Graph (RDPG) Graph Pair</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#clustering">Clustering</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/clustering/autogmm.html">Automatic Gaussian Mixture Modeling</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/clustering/kclust.html">K-Means Clustering</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#embedding">Embedding</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/embedding/AdjacencySpectralEmbed.html">Adjacency Spectral Embed</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/embedding/OutOfSampleEmbed.html">Out-of-Sample (OOS) Embedding</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/embedding/CovariateAssistedEmbed.html">Covariate-Assisted Embedding</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/embedding/MASE.html">Multiple Adjacency Spectral Embedding (MASE)</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/embedding/Omnibus.html">Omnibus Embedding for Multiple Graphs</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#inference">Inference</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/inference/density_test.html">Testing Symmetry of Two Networks with the Density Test</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/inference/density_test.html#Performing-the-Density-Test">Performing the Density Test</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/inference/group_connection_test.html">Group connection test</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/inference/latent_position_test.html">Latent Position Two-Graph Testing</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/inference/latent_distribution_test.html">Latent Distribution Two-Graph Testing</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#plotting">Plotting</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/heatmaps.html">Heatmap: Visualizing a Graph</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/gridplot.html">Gridplot: Visualize Multiple Graphs</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/pairplot.html">Pairplot: Visualizing High Dimensional Data</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/matrixplot.html">Matrixplot and Adjplot: Visualize and sort matrices with metadata</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/pairplot_with_gmm.html">Pairplot with GMM: Visualizing High Dimensional Data and Clustering</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/plotting/networkplot.html">Networkplot: Visualizing 2D Layouts</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#matching">Matching</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/matching/faq.html">Introduction to Graph Matching</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/matching/sgm.html">Seeded Graph Matching (SGM)</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/matching/padded_gm.html">Padded Graph Matching</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#subgraph">Subgraph</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/subgraph/subgraph.html">Signal Subgraph Estimators</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#vertex-nomination">Vertex Nomination</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/vertex_nomination/SpectralVertexNomination.html">Spectral Vertex Nomination</a></li>
<li class="toctree-l3"><a class="reference internal" href="tutorials/nominate/vertex_nomination_via_SGM.html">Nomination via SGM</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#aligning">Aligning</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/aligning/aligning.html">Aligning</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="tutorials/index.html#connectomics">Connectomics</a><ul>
<li class="toctree-l3"><a class="reference internal" href="tutorials/connectomics/mcc.html">Methods for Multiscale Comparative Connectomics</a></li>
</ul>
</li>
</ul>
</li>
</ul>
<p class="caption" role="heading"><span class="caption-text">Useful Links</span></p>
<ul>
<li class="toctree-l1"><a class="reference external" href="http://www.github.com/graspologic-org/graspologic/">graspologic &#64; GitHub</a></li>
<li class="toctree-l1"><a class="reference external" href="https://pypi.org/project/graspologic/">graspologic &#64; PyPI</a></li>
<li class="toctree-l1"><a class="reference external" href="https://github.com/graspologic-org/graspologic/issues">Issue Tracker</a></li>
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