dynamo.pl.highest_frac_genes
- dynamo.pl.highest_frac_genes(adata, n_top=30, gene_prefix_list=None, gene_prefix_only=True, show=True, save_path=None, ax=None, gene_annotations=None, gene_annotation_key='use_for_pca', log=False, store_key='highest_frac_genes', orient='v', figsize=None, layer=None, title=None, v_rotation=35, **kwargs)[source]
Plot top genes
- Parameters
adata (
AnnData
) – adata inputn_top (int, optional) – #top genes to show, by default 30
gene_prefix_list (list, optional) – A list of gene name prefix, by default None
gene_prefix_only (bool, optional) – whether to show prefix of genes only. It only takes effect if gene prefix list is provided, by default True
show (
Optional
[bool
]) – whether to show the results, by default Truesave_path (str, optional) – path to save the figure, by default None
gene_annotations (Optional[list], optional) – Annotations for genes, or annotations for gene prefix subsets, by default None
gene_annotation_key (str, optional) – gene annotations key in adata.var, by default “use_for_pca”. This option is not available for gene_prefix_list and thus users should pass gene_annotations argument for the prefix list.
log (bool, optional) – whether to use log scale, by default False
store_key (str, optional) – key for storing expression percent results, by default “highest_frac_genes”
v_rotation (
float
) – rotation of text sticks when the direction is vertical