baseline-detection.md

jupyter

jupytext kernelspec plotly notebook_metadata_filter text_representation all extension format_name format_version jupytext_version .md markdown 1.1 1.1.1 display_name language name Python 2 python python2 description display_as has_thumbnail language layout name order page_type permalink thumbnail Learn how to detect baselines on data in Python. peak-analysis false python base Baseline Detection 1 example_index python/baseline-detection/ /images/static-image

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Imports

The tutorial below imports NumPy, Pandas, SciPy and PeakUtils.

importplotly.plotlyaspyimportplotly.graph_objsasgoimportplotly.figure_factoryasffimportnumpyasnpimportpandasaspdimportscipyimportpeakutils

Import Data

For our baseline detection example, we will import some data on milk production by month:

milk_data=pd.read_csv('https://raw.githubusercontent.com/plotly/datasets/master/monthly-milk-production-pounds.csv') time_series=milk_data['Monthly milk production (pounds per cow)'] time_series=np.asarray(time_series) df=milk_data[0:15] table=ff.create_table(df) py.iplot(table, filename='milk-production-dataframe')

Plot with Baseline

# calculate baseline y valuesbaseline_values=peakutils.baseline(time_series) trace=go.Scatter( x=[jforjinrange(len(time_series))], y=time_series, mode='lines', marker=dict( color='#B292EA', ), name='Original Plot' ) trace2=go.Scatter( x=[jforjinrange(len(time_series))], y=baseline_values, mode='markers', marker=dict( size=3, color='#EB55BF', symbol='circle-open' ), name='Baseline' ) data= [trace, trace2] py.iplot(data, filename='milk-production-plot-with-baseline')

fromIPython.displayimportdisplay, HTMLdisplay(HTML('<link href="//fonts.googleapis.com/css?family=Open+Sans:600,400,300,200|Inconsolata|Ubuntu+Mono:400,700" rel="stylesheet" type="text/css" />')) display(HTML('<link rel="stylesheet" type="text/css" href="http://help.plot.ly/documentation/all_static/css/ipython-notebook-custom.css">')) ! pipinstallgit+https://github.com/plotly/publisher.git--upgradeimportpublisherpublisher.publish( 'python-Baseline-Detection.ipynb', 'python/baseline-detection/', 'Baseline Detection | plotly', 'Learn how to detect baselines on data in Python.', title='Baseline Detection in Python | plotly', name='Baseline Detection', language='python', page_type='example_index', has_thumbnail='false', display_as='peak-analysis', order=1, ipynb='~notebook_demo/117')