pytometry.plotting.plotdata#

pytometry.plotting.plotdata(adata, key='signal_type', option='area', n_bins=400, normalize=None, cofactor=10, figsize=(15, 6), n_cols=3, save='', **kwargs)#

Creating histogram plot from Anndata object.

Parameters

  • adata (AnnData) – AnnData object containing data.

  • key (str) – string value to point to the column var metadata with the signal type to plot (see option parameter). Defaults to “signal_type”.

  • option (str) – Switch to choose directly between area and height data.

  • n_bins (int) – int value to control the number of bins per histogram plot

  • normalize (Optional[str]) – choose between “arcsinh”, “biExp” and “logicle”

  • cofactor (Optional[float]) – float value to normalize with in arcsinh-transform

  • figsize (Tuple[float, float]) – tuple to control the overall figure size.

  • n_cols (int) – int value, number of columns of the plot.

  • save (str) – str value, filename to save the shown figure

  • kwargs – Passed to matplotlib.pyplot.savefig()

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