omicverse.pl.embedding_celltype

omicverse.pl.embedding_celltype(adata, figsize=(6, 4), basis='umap', celltype_key='major_celltype', title=None, celltype_range=(2, 9), embedding_range=(3, 10), xlim=-1000)

Plot embedding with celltype color by omicverse.

Parameters:

• adata (AnnData) – AnnData object

• figsize (tuple (default: (6, 4))) – tuple, optional (default=(6,4)) Figure size

• basis (str (default: 'umap')) – str, optional (default=’umap’) Embedding method

• celltype_key (str (default: 'major_celltype')) – str, optional (default=’major_celltype’) Celltype key in adata.obs

• title (str (default: None)) – str, optional (default=None) Figure title

• celltype_range (tuple (default: (2, 9))) – tuple, optional (default=(2,9)) Celltype range to plot

• embedding_range (tuple (default: (3, 10))) – tuple, optional (default=(3,10)) Embedding range to plot

• xlim (int (default: -1000)) – int, optional (default=-1000) X axis limit

Returns:

figure and axis ax: axis

Return type:

fig