scanpy.pl.rank_genes_groups
- scanpy.pl.rank_genes_groups(adata, 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.
- Parameters:
- 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 astr
, 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.
- adata :
Examples
import scanpy as sc adata = sc.datasets.pbmc68k_reduced() sc.pl.rank_genes_groups(adata)
Plot top 10 genes (default 20 genes)
sc.pl.rank_genes_groups(adata, n_genes=10)
See also