scanpy.pl.pca_variance_ratio

scanpy.pl.pca_variance_ratio(adata, n_pcs=30, *, log=False, show=None, save=None)

Plot the variance ratio.

Parameters:

n_pcs int (default: 30)

Number of PCs to show.

log bool (default: False)

Plot on logarithmic scale..

show bool | None (default: None)

Show the plot, do not return axis.

save bool | str | None (default: None)

If True or a str, save the figure. A string is appended to the default filename. Infer the filetype if ending on {'.pdf', '.png', '.svg'}.

Examples

Plot the variance ratio for the first 30 PCs.

import scanpy as sc
adata = sc.datasets.pbmc3k_processed()
sc.pl.pca_variance_ratio(adata)

Plot on a logarithmic scale.

sc.pl.pca_variance_ratio(adata, log=True)