hv_anndata.plotting.scanpy.highest_expr_genes

hv_anndata.plotting.scanpy.highest_expr_genes(adata, n_top=20, *, layer=None, gene_symbols=None)

Get n_top genes by mean expression.

Uses hv_anndata.plotting.utils.highest_expr_genes() internally.

Parameters:

adata AnnData

The AnnData object.

n_top int, default: 20

The number of top genes to plot.

layer str | None, default: None

The layer to use.

gene_symbols str | None, default: None

The column name containing gene symbols.

Return type:

BoxWhisker

Returns:

A box-and-whisker plot.

Examples

bokeh

import hv_anndata.plotting.scanpy as hv_sc
from hv_anndata import data, register, A

register()

adata = data.pbmc68k_processed()
hv_sc.highest_expr_genes(adata, layer="counts")

matplotlib

import hv_anndata.plotting.scanpy as hv_sc
from hv_anndata import data, register, A

register()

adata = data.pbmc68k_processed()
hv_sc.highest_expr_genes(adata, layer="counts")

plotly

import hv_anndata.plotting.scanpy as hv_sc
from hv_anndata import data, register, A

register()

adata = data.pbmc68k_processed()
hv_sc.highest_expr_genes(adata, layer="counts")