Saunders_2018_SingleCell.ipynb

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   "source": [
    "This graph is of data from: \n",
    "\n",
    "Saunders A*, Macosko E.Z*, Wysoker A, Goldman M, Krienen, F, de Rivera H, Bien E, Baum M, Wang S, Bortolin L, Goeva A, Nemesh J, Kamitaki N, Brumbaugh S, Kulp D and McCarroll, S.A. 2018. Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain. 2018. Cell. 174(4) P1015-1030.E16\n",
    "\n",
    "Data is DropSeq from adult mouse brain"
   ]
  },
  {
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   "execution_count": 1,
   "metadata": {
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   "source": [
    "import matplotlib \n",
    "import ipywidgets as widgets\n",
    "import pandas as pd\n",
    "import io\n",
    "import seaborn as sns\n",
    "from IPython.display import display\n",
    "from ipywidgets import interact_manual, interactive,GridspecLayout, AppLayout, Button, Layout, Widget\n",
    "import plotly.express as px\n",
    "\n",
    "data = pd.read_csv(\"clusters.csv\")"
   ]
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  {
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   "execution_count": 13,
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      "text/plain": [
       "Index(['Region', 'Class', 'Cluster', 'Rapgef2_Amount', 'Rapgef2_PVal'], dtype='object')"
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    "data.columns = ['Region','Class','Cluster','Rapgef2_Amount','Rapgef2_PVal']"
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       "                        {\"responsive\": true}\n",
       "                    ).then(function(){\n",
       "                            \n",
       "var gd = document.getElementById('a7380d69-2764-4b31-8037-d16401a5e3fd');\n",
       "var x = new MutationObserver(function (mutations, observer) {{\n",
       "        var display = window.getComputedStyle(gd).display;\n",
       "        if (!display || display === 'none') {{\n",
       "            console.log([gd, 'removed!']);\n",
       "            Plotly.purge(gd);\n",
       "            observer.disconnect();\n",
       "        }}\n",
       "}});\n",
       "\n",
       "// Listen for the removal of the full notebook cells\n",
       "var notebookContainer = gd.closest('#notebook-container');\n",
       "if (notebookContainer) {{\n",
       "    x.observe(notebookContainer, {childList: true});\n",
       "}}\n",
       "\n",
       "// Listen for the clearing of the current output cell\n",
       "var outputEl = gd.closest('.output');\n",
       "if (outputEl) {{\n",
       "    x.observe(outputEl, {childList: true});\n",
       "}}\n",
       "\n",
       "                        })\n",
       "                };\n",
       "                });\n",
       "            </script>\n",
       "        </div>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    " import plotly.graph_objects as go\n",
    "fig = px.bar(data, x=\"Class\", y=\"Rapgef2_Amount\", color = \"Cluster\", \n",
    "                    facet_row = \"Region\",\n",
    "                     width=1200, height=2100,\n",
    "                    hover_name = \"Cluster\",\n",
    "                    hover_data = [\"Class\", \"Cluster\", \"Rapgef2_Amount\", \"Rapgef2_PVal\"]\n",
    "                    )\n",
    "for a in fig.layout.annotations:\n",
    "    a.text = a.text.split(\"=\")[1]\n",
    "fig.update_yaxes(title_text='')\n",
    "fig.show()\n",
    "\n",
    "            ## print table\n",
    "fig2 = go.Figure(data=[go.Table(\n",
    "header=dict(values=list(data.columns),\n",
    "                    fill_color='paleturquoise',\n",
    "                    align='left'),\n",
    "cells=dict(values=[data.Region,data.Class, data.Cluster, data.Rapgef2_Amount,\n",
    "                              data.Rapgef2_PVal],\n",
    "                    fill_color='lavender',\n",
    "                    align='left'))\n",
    "                ])\n",
    "fig2.show()"
   ]
  },
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