plots_fig1.ipynb

   }
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "outputs": [],
   "source": [
    "save_name = \"fig1I_WBC_myelo_baseline_emod\"\n",
    "savepath = os.path.join(savefolder, save_name)\n",
    "fig.tight_layout()\n",
    "fig.savefig(savepath+\".pdf\", dpi=900, format='pdf')"
   ],
   "metadata": {
    "collapsed": false,
    "pycharm": {
     "name": "#%%\n"
    }
   }
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "p-Value (Likelihood Ratio Test): 0.00706240810654952\n",
      "Estimate: 0.723401625492519\n",
      "Std. Error (Estimate): 0.258049356018904\n",
      "Fixed Effect: 0.146437880098183\n",
      "Std. Error (Fixed Effect) 0.258412927980769\n"
     ]
    }
   ],
   "source": [
    "para = 'emodulus'\n",
    "\n",
    "Result = linmixmod(xs=df_myelo[para], treatment=df_myelo['treatment'],\n",
    "                   #df_myelo['repeat'] begins at 0, but 0 values are excluded from the computation\n",
    "                   timeunit=df_myelo['repeat']+1, model='lmm')\n",
    "\n",
    "print(\"p-Value (Likelihood Ratio Test):\", Result[\"p-Value (Likelihood Ratio Test)\"])\n",
    "print(\"Estimate:\", Result[\"Estimate\"])\n",
    "print(\"Std. Error (Estimate):\", Result[\"Std. Error (Estimate)\"])\n",
    "print(\"Fixed Effect:\", Result[\"Fixed Effect\"])\n",
    "print(\"Std. Error (Fixed Effect)\", Result[\"Std. Error (Fixed Effect)\"])"
   ],
   "metadata": {
    "collapsed": false,
    "pycharm": {
     "name": "#%%\n"
    }
   }
  },
  {
   "cell_type": "markdown",
   "source": [
    "```\n",
    "p-Value (Likelihood Ratio Test): 0.00706240810655399\n",
    "Estimate: 0.723401625519808\n",
    "Std. Error (Estimate): 0.258067695307158\n",
    "Fixed Effect: 0.146437923010934\n",
    "Std. Error (Fixed Effect) 0.258431194852495\n",
    "```"
   ],
   "metadata": {
    "collapsed": false,
    "pycharm": {
     "name": "#%% md\n"
    }
   }
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "outputs": [],
   "source": [],
   "metadata": {
    "collapsed": false,
    "pycharm": {
     "name": "#%%\n"
    }
   }
  }
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