372 строки
29 KiB
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372 строки
29 KiB
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graspologic
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0.0.0
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-3-3-0">graspologic 3.3.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-3-2-0">graspologic 3.2.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-3-1-0">graspologic 3.1.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-3-0-0">graspologic 3.0.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-2-0-1">graspologic 2.0.1</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-2-0-0">graspologic 2.0.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-1-0-0">graspologic 1.0.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-0-3-0">graspologic 0.3.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-0-2-0">graspologic 0.2.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#graspologic-0-1-0">graspologic 0.1.0</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/release.html#previous-graspy-releases">Previous GraSPy Releases</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/align.html">Aligning</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/align.html#sign-flips">Sign flips</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/align.html#orthogonal-procrustes">Orthogonal Procrustes</a></li>
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<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>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/cluster.html#k-means-clustering">K-Means Clustering</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/cluster.html#gaussian-mixture-models-clustering">Gaussian Mixture Models Clustering</a></li>
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<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-l3"><a class="reference internal" href="../reference/reference/datasets.html#drosophila-larval-mushroom-body">Drosophila larval mushroom body</a></li>
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<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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</ul>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/embed.html">Embedding</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/embed.html#decomposition">Decomposition</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/embed.html#single-graph-embedding">Single graph embedding</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/embed.html#multiple-graph-embedding">Multiple graph embedding</a></li>
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<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>
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<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-l3"><a class="reference internal" href="../reference/reference/layouts.html#nodeposition">NodePosition</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/layouts.html#automatic-graph-layout">Automatic Graph Layout</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/layouts.html#colors">Colors</a></li>
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<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>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/match.html#graph-matching">Graph Matching</a></li>
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</ul>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/models.html">Models</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/models.html#erdos-reyni-models">Erdos-Reyni models</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/models.html#stochastic-block-models">Stochastic block models</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/models.html#latent-position-models">Latent position models</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/models.html#edge-swapping-configuration-models">Edge swapping (configuration models)</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/nominate.html">Nomination</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/nominate.html#spectral-vertex-nomination">Spectral Vertex Nomination</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/nominate.html#vertex-nomination-via-sgm">Vertex Nomination via SGM</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/partition.html">Partition</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/partition.html#modularity-and-component-modularity">Modularity and Component Modularity</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/partition.html#leiden-and-hierarchical-leiden">Leiden and Hierarchical Leiden</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/preconditions.html">Preconditions</a><ul>
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<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>
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<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>
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<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>
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<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>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/pipeline.html">Pipeline</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/pipeline.html#graphbuilder">GraphBuilder</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/pipeline.html#module-graspologic.pipeline.embed">Embed</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/plotting.html">Plotting</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#heatmap">Heatmap</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#gridplot">Gridplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#pairplot">Pairplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#degreeplot">Degreeplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#edgeplot">Edgeplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#screeplot">Screeplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#adjplot">Adjplot</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/plotting.html#matrixplot">Matrixplot</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/preprocessing.html">Preprocessing</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/preprocessing.html#graph-cuts">Graph Cuts</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/simulations.html">Simulations</a><ul>
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<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>
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<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>
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<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>
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<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>
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<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>
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<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>
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<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>
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<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>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/subgraph.html">Subgraph</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/subgraph.html#signal-subgraph-estimators">Signal-Subgraph Estimators</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../reference/reference/utils.html">Utility</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/utils.html#transformations">Transformations</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/utils.html#connected-components">Connected Components</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/utils.html#io">IO</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../reference/reference/utils.html#other">Other</a></li>
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</ul>
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</li>
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</ul>
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</li>
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<li class="toctree-l1"><a class="reference internal" href="../tutorials/index.html">Tutorials</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#models">Models</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/models/models.html">Random Graph Models</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/models/edge_swaps.html">Degree Preserving Edge Swaps</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#simulations">Simulations</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/erdos_renyi.html">Erdos-Renyi (ER) Model</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/sbm.html">Stochastic Block Model (SBM)</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/mmsbm.html">Mixed Membership Stochastic Blockmodel (MMSBM)</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/rdpg.html">Random Dot Product Graph (RDPG) Model</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/corr.html">Correlated Graph Pairs</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/simulations/rdpg_corr.html">Correlated Random Dot Product Graph (RDPG) Graph Pair</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#clustering">Clustering</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/clustering/autogmm.html">Automatic Gaussian Mixture Modeling</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/clustering/kclust.html">K-Means Clustering</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#embedding">Embedding</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/embedding/AdjacencySpectralEmbed.html">Adjacency Spectral Embed</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/embedding/OutOfSampleEmbed.html">Out-of-Sample (OOS) Embedding</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/embedding/CovariateAssistedEmbed.html">Covariate-Assisted Embedding</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/embedding/MASE.html">Multiple Adjacency Spectral Embedding (MASE)</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/embedding/Omnibus.html">Omnibus Embedding for Multiple Graphs</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#inference">Inference</a><ul>
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<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>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/inference/density_test.html#Performing-the-Density-Test">Performing the Density Test</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/inference/group_connection_test.html">Group connection test</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/inference/latent_position_test.html">Latent Position Two-Graph Testing</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/inference/latent_distribution_test.html">Latent Distribution Two-Graph Testing</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#plotting">Plotting</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/plotting/heatmaps.html">Heatmap: Visualizing a Graph</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/plotting/gridplot.html">Gridplot: Visualize Multiple Graphs</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/plotting/pairplot.html">Pairplot: Visualizing High Dimensional Data</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/plotting/matrixplot.html">Matrixplot and Adjplot: Visualize and sort matrices with metadata</a></li>
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<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>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/plotting/networkplot.html">Networkplot: Visualizing 2D Layouts</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#matching">Matching</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/matching/faq.html">Introduction to Graph Matching</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/matching/sgm.html">Seeded Graph Matching (SGM)</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/matching/padded_gm.html">Padded Graph Matching</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#subgraph">Subgraph</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/subgraph/subgraph.html">Signal Subgraph Estimators</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#vertex-nomination">Vertex Nomination</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/vertex_nomination/SpectralVertexNomination.html">Spectral Vertex Nomination</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/nominate/vertex_nomination_via_SGM.html">Nomination via SGM</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#aligning">Aligning</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/aligning/aligning.html">Aligning</a></li>
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</ul>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="../tutorials/index.html#connectomics">Connectomics</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../tutorials/connectomics/mcc.html">Methods for Multiscale Comparative Connectomics</a></li>
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</ul>
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</li>
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</ul>
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</li>
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</ul>
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<p class="caption" role="heading"><span class="caption-text">Useful Links</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference external" href="http://www.github.com/graspologic-org/graspologic/">graspologic @ GitHub</a></li>
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<li class="toctree-l1"><a class="reference external" href="https://pypi.org/project/graspologic/">graspologic @ PyPI</a></li>
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<li class="toctree-l1"><a class="reference external" href="https://github.com/graspologic-org/graspologic/issues">Issue Tracker</a></li>
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</ul>
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</div>
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</div>
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<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<a href="../index.html">graspologic</a>
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<div class="wy-nav-content">
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<div class="rst-content">
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<li><a href="../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item active">Overview: module code</li>
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<li class="wy-breadcrumbs-aside">
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<h1>All modules for which code is available</h1>
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<ul><li><a href="graspologic/align/orthogonal_procrustes.html">graspologic.align.orthogonal_procrustes</a></li>
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<li><a href="graspologic/align/seedless_procrustes.html">graspologic.align.seedless_procrustes</a></li>
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<li><a href="graspologic/align/sign_flips.html">graspologic.align.sign_flips</a></li>
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<li><a href="graspologic/cluster/autogmm.html">graspologic.cluster.autogmm</a></li>
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<li><a href="graspologic/cluster/divisive_cluster.html">graspologic.cluster.divisive_cluster</a></li>
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<li><a href="graspologic/cluster/gclust.html">graspologic.cluster.gclust</a></li>
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<li><a href="graspologic/cluster/kclust.html">graspologic.cluster.kclust</a></li>
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<li><a href="graspologic/datasets/base.html">graspologic.datasets.base</a></li>
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<li><a href="graspologic/embed/ase.html">graspologic.embed.ase</a></li>
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<li><a href="graspologic/embed/lse.html">graspologic.embed.lse</a></li>
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<li><a href="graspologic/embed/mase.html">graspologic.embed.mase</a></li>
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<li><a href="graspologic/embed/mds.html">graspologic.embed.mds</a></li>
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<li><a href="graspologic/embed/mug2vec.html">graspologic.embed.mug2vec</a></li>
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<li><a href="graspologic/embed/n2v.html">graspologic.embed.n2v</a></li>
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<li><a href="graspologic/embed/omni.html">graspologic.embed.omni</a></li>
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<li><a href="graspologic/embed/svd.html">graspologic.embed.svd</a></li>
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<li><a href="graspologic/inference/density_test.html">graspologic.inference.density_test</a></li>
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<li><a href="graspologic/inference/group_connection_test.html">graspologic.inference.group_connection_test</a></li>
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<li><a href="graspologic/inference/latent_distribution_test.html">graspologic.inference.latent_distribution_test</a></li>
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<li><a href="graspologic/inference/latent_position_test.html">graspologic.inference.latent_position_test</a></li>
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<li><a href="graspologic/layouts/auto.html">graspologic.layouts.auto</a></li>
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<li><a href="graspologic/layouts/classes.html">graspologic.layouts.classes</a></li>
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<li><a href="graspologic/layouts/colors.html">graspologic.layouts.colors</a></li>
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<li><a href="graspologic/layouts/render.html">graspologic.layouts.render</a></li>
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<li><a href="graspologic/match/wrappers.html">graspologic.match.wrappers</a></li>
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<li><a href="graspologic/models/edge_swaps.html">graspologic.models.edge_swaps</a></li>
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<li><a href="graspologic/models/er.html">graspologic.models.er</a></li>
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<li><a href="graspologic/models/rdpg.html">graspologic.models.rdpg</a></li>
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<li><a href="graspologic/models/sbm_estimators.html">graspologic.models.sbm_estimators</a></li>
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<li><a href="graspologic/nominate/VNviaSGM.html">graspologic.nominate.VNviaSGM</a></li>
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<li><a href="graspologic/nominate/spectralVN.html">graspologic.nominate.spectralVN</a></li>
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<li><a href="graspologic/partition/leiden.html">graspologic.partition.leiden</a></li>
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<li><a href="graspologic/partition/modularity.html">graspologic.partition.modularity</a></li>
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<li><a href="graspologic/pipeline/embed/adjacency_spectral_embedding.html">graspologic.pipeline.embed.adjacency_spectral_embedding</a></li>
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<li><a href="graspologic/pipeline/embed/embeddings.html">graspologic.pipeline.embed.embeddings</a></li>
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<li><a href="graspologic/pipeline/embed/laplacian_spectral_embedding.html">graspologic.pipeline.embed.laplacian_spectral_embedding</a></li>
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<li><a href="graspologic/pipeline/embed/omnibus_embedding.html">graspologic.pipeline.embed.omnibus_embedding</a></li>
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<li><a href="graspologic/pipeline/graph_builder.html">graspologic.pipeline.graph_builder</a></li>
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<li><a href="graspologic/plot/plot.html">graspologic.plot.plot</a></li>
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<li><a href="graspologic/plot/plot_matrix.html">graspologic.plot.plot_matrix</a></li>
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<li><a href="graspologic/preconditions.html">graspologic.preconditions</a></li>
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<li><a href="graspologic/preprocessing/graph_cuts.html">graspologic.preprocessing.graph_cuts</a></li>
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<li><a href="graspologic/simulations/rdpg_corr.html">graspologic.simulations.rdpg_corr</a></li>
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<li><a href="graspologic/simulations/simulations.html">graspologic.simulations.simulations</a></li>
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<li><a href="graspologic/simulations/simulations_corr.html">graspologic.simulations.simulations_corr</a></li>
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<li><a href="graspologic/subgraph/sg.html">graspologic.subgraph.sg</a></li>
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<li><a href="graspologic/utils/ptr.html">graspologic.utils.ptr</a></li>
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<li><a href="graspologic/utils/utils.html">graspologic.utils.utils</a></li>
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<li><a href="namedtuple_DefinedHistogram.html">namedtuple_DefinedHistogram</a></li>
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<li><a href="namedtuple_HierarchicalCluster.html">namedtuple_HierarchicalCluster</a></li>
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<li><a href="namedtuple_NodePosition.html">namedtuple_NodePosition</a></li>
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</ul>
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</div>
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