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phobson/ros.ipynb

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ros.ipynb
{
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"name": "ROS Example"
},
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{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Load up the libraries that we need"
]
},
{
"cell_type": "code",
"collapsed": false,
"input": [
"%cd C:/Users/Me/Path/to/My/Data/files\n",
"%pylab inline\n",
"import StringIO\n",
"from utils import ros\n",
"import matplotlib.pyplot as plt\n",
"import pandas"
],
"language": "python",
"metadata": {},
"outputs": [
{
"output_type": "stream",
"stream": "stdout",
"text": [
"\n",
"Welcome to pylab, a matplotlib-based Python environment [backend: module://IPython.zmq.pylab.backend_inline].\n",
"For more information, type 'help(pylab)'.\n"
]
},
{
"output_type": "stream",
"stream": "stderr",
"text": [
"c:\\Python27\\lib\\site-packages\\pytz\\__init__.py:35: UserWarning: Module IPython was already imported from c:\\users\\phobson\\work\\ipython\\IPython\\__init__.pyc, but c:\\python27\\lib\\site-packages\\ipython-0.13.1.dev-py2.7.egg is being added to sys.path\n",
" from pkg_resources import resource_stream\n"
]
}
],
"prompt_number": 1
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Read in the CSV file and perform the analysis"
]
},
{
"cell_type": "code",
"collapsed": false,
"input": [
"fakedata = pandas.read_csv('fakeCSV.csv')\n",
"rosdata = ros.MR(fakedata)"
],
"language": "python",
"metadata": {},
"outputs": [],
"prompt_number": 2
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Save the estimated data to a file"
]
},
{
"cell_type": "code",
"collapsed": false,
"input": [
"pandas.DataFrame(rosdata.final_data).to_csv('ros_output.txt', index=False, header=False)"
],
"language": "python",
"metadata": {},
"outputs": [],
"prompt_number": 3
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Make a little graph showing what we did"
]
},
{
"cell_type": "code",
"collapsed": false,
"input": [
"fig, ax = plt.subplots()\n",
"ax.plot(rosdata.Z, rosdata.final_data, linestyle='none', \n",
" marker='o', markeredgecolor='CornflowerBlue', markerfacecolor='none',\n",
" markersize=8, markeredgewidth=2, label='Estimated Data')\n",
"ax.plot(rosdata.Z, rosdata.data.res, linestyle='none', \n",
" marker='.', markeredgecolor='DarkGreen', markerfacecolor='DarkGreen',\n",
" markersize=8, label='Original Data')\n",
"ax.legend(loc='upper left')\n",
"ax.set_xlabel('Z-score')\n",
"ax.set_ylabel('Concentration (units)')\n",
"plt.show()"
],
"language": "python",
"metadata": {},
"outputs": [
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