{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {
    "pycharm": {
     "name": "#%% md\n"
    }
   },
   "source": [
    "# Dendrograms"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {
    "pycharm": {
     "name": "#%% md\n"
    }
   },
   "source": [
    "Visualization of dendrograms as SVG images."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    },
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "from IPython.display import SVG"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "import numpy as np"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "from sknetwork.data import karate_club, painters, movie_actor\n",
    "from sknetwork.hierarchy import Paris\n",
    "from sknetwork.visualization import visualize_graph, visualize_bigraph\n",
    "from sknetwork.visualization import visualize_dendrogram"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {
    "pycharm": {
     "name": "#%% md\n"
    }
   },
   "source": [
    "## Graphs"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "graph = karate_club(metadata=True)\n",
    "adjacency = graph.adjacency\n",
    "position = graph.position\n",
    "labels = graph.labels"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# graph\n",
    "image = visualize_graph(adjacency, position, labels=labels)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# hierarchical clustering\n",
    "paris = Paris()\n",
    "dendrogram = paris.fit_transform(adjacency)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# visualization\n",
    "image = visualize_dendrogram(dendrogram)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# add names, set colors\n",
    "n = adjacency.shape[0]\n",
    "image = visualize_dendrogram(dendrogram, names=np.arange(n), n_clusters=5, color='gray')\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# export\n",
    "visualize_dendrogram(dendrogram, filename='dendrogram_karate_club')"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {
    "pycharm": {
     "name": "#%% md\n"
    }
   },
   "source": [
    "## Directed graphs"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "graph = painters(metadata=True)\n",
    "adjacency = graph.adjacency\n",
    "names = graph.names\n",
    "position = graph.position"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# graph\n",
    "image = visualize_graph(adjacency, position, names)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# hierarchical clustering\n",
    "paris = Paris()\n",
    "dendrogram = paris.fit_transform(adjacency)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# visualization\n",
    "image = visualize_dendrogram(dendrogram, names, n_clusters=3, rotate=True)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {
    "pycharm": {
     "name": "#%% md\n"
    }
   },
   "source": [
    "## Bipartite graphs"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "graph = movie_actor(metadata=True)\n",
    "biadjacency = graph.biadjacency\n",
    "names_row = graph.names_row\n",
    "names_col = graph.names_col"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# graph\n",
    "image = visualize_bigraph(biadjacency, names_row, names_col)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# hierarchical clustering\n",
    "paris = Paris()\n",
    "paris.fit(biadjacency)\n",
    "dendrogram_row = paris.dendrogram_row_\n",
    "dendrogram_col = paris.dendrogram_col_\n",
    "dendrogram_full = paris.dendrogram_full_"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "# visualization\n",
    "image = visualize_dendrogram(dendrogram_row, names_row, n_clusters=3, rotate=True)\n",
    "SVG(image)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "pycharm": {
     "name": "#%%\n"
    }
   },
   "outputs": [],
   "source": [
    "image = visualize_dendrogram(dendrogram_col, names_col, n_clusters=3, rotate=True)\n",
    "SVG(image)\n"
   ]
  }
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