Merge pull request #1 from UUDeCART/master

merge
UUDeCART · Jul 2, 2019 · 095708f · 095708f
2 parents 6a90d3a + 50bcc7b
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diff --git a/modules/module2/original_bp_data.ipynb b/modules/module2/original_bp_data.ipynb
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+{
+ "cells": [
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "<html>\n",
+    "<table width=\"100%\" cellspacing=\"2\" cellpadding=\"2\" border=\"1\">\n",
+    "<tbody>\n",
+    "<tr>\n",
+    "<td valign=\"center\" align=\"center\" width=\"25%\"><img src=\"../../media/decartes.jpg\"\n",
+    "alt=\"DeCART Icon\" width=\"128\" height=\"171\"><br>\n",
+    "</td>\n",
+    "<td valign=\"center\" align=\"center\" width=\"75%\">\n",
+    "<h1 align=\"center\"><font size=\"+1\">DeCART Summer School<br>\n",
+    "for<br>\n",
+    "Biomedical Data Science</font></h1></td>\n",
+    "<td valign=\"center\" align=\"center\" width=\"25%\"><img\n",
+    "src=\"../../media/U_Health_stacked_png_red.png\" alt=\"Utah Health\n",
+    "Logo\" width=\"128\" height=\"134\"><br>\n",
+    "</td>\n",
+    "</tr>\n",
+    "</tbody>\n",
+    "</table>\n",
+    "<br>\n",
+    "</html>\n",
+    "\n",
+    "# MIMIC2 Heart Rate Data\n",
+    "\n",
+    "The heart rate and blood pressure data we have been working with is on the verge of worthlessness. Why?\n",
+    "\n",
+    "## What do we know about the data originally?\n",
+    "\n",
+    "### The numeric data we are analyzing were all pulled from a MySQL database\n",
+    "\n",
+    "In this notebook we will do a SQL query to see what the originally data looked like."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import pymysql\n",
+    "import pandas as pd\n",
+    "import getpass"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "conn = pymysql.connect(host=\"mysql\",port=3306,\n",
+    "                       user=\"jovyan\",passwd=getpass.getpass(\"Enter password for MIMIC2 database\"),\n",
+    "                       db='mimic2')"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "cursor = conn.cursor()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "bloodpressure = pd.read_sql(\"\"\"SELECT * FROM chartevents WHERE \n",
+    "                            itemid in (6, 51, 455, 6701) LIMIT 1000\"\"\",conn)\n"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "bloodpressure.head()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": "Python [default]",
+   "language": "python",
+   "name": "python3"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.6.4"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 1
+}