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CONFIGURATION.md

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Advanced Configuration

Sorting and filtering

missingno also provides utility functions for filtering records in your dataset based on completion. These are useful in particular for filtering through and drilling down into particularly large datasets whose data nullity issues might otherwise be very hard to visualize or understand.

Let's first apply a nullity_filter() to the data. The filter parameter controls which result set we want: either filter=top or filter=bottom. The n parameter controls the maximum number of columns that you want: so for example n=5 makes sure we get at most five results. Finally, p controls the percentage cutoff. If filter=bottom, then p=0.9 makes sure that our columns are at most 90% complete; if filter=top we get columns which are at least 90% complete.

For example, the following query filtered down to only at most 15 columns which are not completely filled.

>>> filtered_data = msno.nullity_filter(data, filter='bottom', n=15, p=0.999) # or filter='top'
>>> msno.matrix(filtered_data.sample(250))

alt text

nullity_sort() simply reshuffles your rows by completeness, in either ascending or descending order. Since it doesn't affect the underlying data it's mainly useful for matrix visualization:

>>> sorted_data = msno.nullity_sort(data, sort='descending') # or sort='ascending'
>>> msno.matrix(sorted_data.sample(250))

alt text

These methods work inline within the visualization methods themselves. For instance, the following is perfectly valid:

>>> msno.matrix(data.sample(250), filter='top', n=5, p=0.9, sort='ascending')

Visual configuration

Lesser parameters

Each of the visualizations provides a further set of lesser configuration parameters for visually tweaking the display.

matrix, bar, heatmap, dendrogram, and geoplot all provide:

  • figsize: The size of the figure to display. This is a matplotlib parameter which defaults to (20, 12), except for large dendrogram visualizations, which compute a height on the fly based on the number of variables to display.
  • fontsize: The figure's font size. The default is 16.
  • labels: Whether or not to display the column names. For matrix this defaults to True for <=50 variables and False for >50. It always defaults to True for dendrogram and heatmap.
  • inline: Defaults to True, in which case the chart is plotted and nothing is returned. If this is set to False the methods omit plotting and return their visualizations instead.

matrix also provides:

  • sparkline: Set this to False to not draw the sparkline.
  • freq: If you are working with timeseries data (a pandas DataFrame with a PeriodIndex or DatetimeIndex) you can specify and display a choice of offset.
  • width_ratios: The ratio of the width of the matrix to the width of the sparkline. Defaults to (15, 1). Does nothing if sparkline=False.
  • color: The color of the filled columns. Defaults to (0.25, 0.25, 0.25).

bar also provides:

  • log: Set this to True to use a logarithmic scale.
  • color: The color of the filled columns. Defaults to (0.25, 0.25, 0.25).

heatmap also provides:

  • cmap: What matplotlib colormap to use. Defaults to RdBu.

dendrogram also provides:

  • orientation: The orientation of the dendrogram. Defaults to top if <=50 columns and left if there are more.
  • method: The linkage method scipy.hierarchy uses for clustering. average is the default argument.

geoplot also provides:

  • x AND y OR coordinates: A column of points (in either two columns or one) to plot. These are required.
  • by: A column of values to group points by.
  • geometry: A hash table (dict or pd.Series generally) geometries of the groups being aggregated, if available.
  • cutoff: The minimum number of observations per rectangle in the quadtree display. No effect if a different display is used. Defaults to min([50, 0.05*len(df)]).
  • histogram: Whether or not to plot the histogram. Defaults to False.

Manipulation with matplotlib

If you are not satisfied with these admittedly basic configuration parameters, the display can be further manipulated in any way you like using matplotlib post-facto.

The best way to do this is to specify inline=False, which will cause missingno to return the underlying matplotlib.figure.Figure object. Anyone with sufficient knowledge of matplotlib operations and the missingno source code can then tweak the display to their liking. For example, the following code will bump the size of the dendrogram visualization's y-axis labels up from 20 to 30:

>>> mat = msno.dendrogram(collisions, inline=False)
>>> mat.axes[0].tick_params(axis='y', labelsize=30)