, groups=None, n_genes=20, gene_symbols=None, key='rank_genes_groups', fontsize=8, ncols=4, sharey=True, show=None, save=None, ax=None, **kwds)

Plot ranking of genes.

adata : AnnData

Annotated data matrix.

groups : Union[str, Sequence[str], None] (default: None)

The groups for which to show the gene ranking.

gene_symbols : Optional[str] (default: None)

Key for field in .var that stores gene symbols if you do not want to use .var_names.

n_genes : int (default: 20)

Number of genes to show.

fontsize : int (default: 8)

Fontsize for gene names.

ncols : int (default: 4)

Number of panels shown per row.

sharey : bool (default: True)

Controls if the y-axis of each panels should be shared. But passing sharey=False, each panel has its own y-axis range.

show : Optional[bool] (default: None)

Show the plot, do not return axis.

save : Optional[bool] (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'}.

ax : Optional[Axes] (default: None)

A matplotlib axes object. Only works if plotting a single component.


import scanpy as sc
adata = sc.datasets.pbmc68k_reduced()

Plot top 10 genes (default 20 genes), n_genes=10)