Created using Colaboratory

Author: mitzimorris

jupyter/covid-inf-rate/SantaClara_CmdStanPy.ipynb

@@ -6,7 +6,7 @@
       "name": "SantaClara_CmdStanPy.ipynb",
       "provenance": [],
       "collapsed_sections": [],
-      "authorship_tag": "ABX9TyNh1NuXuIIVzc5g9FQpoq1m",
+      "authorship_tag": "ABX9TyO+4ndiPqTmNPOOEqDioYv+",
       "include_colab_link": true
     },
     "kernelspec": {
@@ -373,6 +373,16 @@
       "execution_count": 0,
       "outputs": []
     },
+    {
+      "cell_type": "markdown",
+      "metadata": {
+        "id": "L1CzZED7FtCS",
+        "colab_type": "text"
+      },
+      "source": [
+        "In order to avoid divergent iterations, which result in biased estimates, we set the parameter adapt_delta to 0.98.  To check the resulting sample, we run CmdStan's `diagnose` utility."
+      ]
+    },
     {
       "cell_type": "code",
       "metadata": {