crested.pl.qc.normalization_weights

crested.pl.qc.normalization_weights#

crested.pl.qc.normalization_weights(adata, plot_kws=None, ax=None, **kwargs)#

Plot the distribution of normalization scaling factors per cell type after running normalize_peaks().

Parameters:

  • adata (AnnData) – AnnData object containing the normalization weights in obsm["weights"].

  • plot_kws (dict | None (default: None)) – Extra keyword arguments passed to bar().

  • ax (Axes | None (default: None)) – Axis to plot values on. If not supplied, creates a figure from scratch.

  • width – Width of the newly created figure if ax=None. Default is 20.

  • height – Height of the newly created figure if ax=None. Default is 5.

  • kwargs – Additional arguments passed to render_plot() to control the final plot output. Please see render_plot() for details. Custom defaults for normalization_weights: xlabel="Cell type", ylabel="Scaling factor", grid='y'.

Return type:

tuple[Figure, Axes] | None

See also

crested.pl.render_plot, crested.pp.normalize_peaks

Example

>>> crested.pl.qc.normalization_weights(
...     adata,
...     width=20,
...     height=3,
...     title="Normalization scaling factors",
... )
../../_images/qc_normalization_weights.png
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