stlearn.pl.QC_plot

stlearn.pl.QC_plot(adata: anndata._core.anndata.AnnData, library_id: str = None, name: str = None, data_alpha: float = 0.8, tissue_alpha: float = 1.0, cmap: str = 'Spectral_r', spot_size: tuple = 5, 40, show_color_bar: bool = True, show_size_legend: bool = True, show_axis: bool = False, cropped: bool = True, margin: int = 100, dpi: int = 150, output: str = None) → Optional[anndata._core.anndata.AnnData]

QC plot for sptial transcriptomics data.

Parameters

• adata – Annotated data matrix.

• library_id – Library id stored in AnnData.

• data_alpha – Opacity of the spot.

• tissue_alpha – Opacity of the tissue.

• cmap – Color map to use.

• spot_size – Size of the spot (min, max).

• show_color_bar – Show color bar or not.

• show_axis – Show axis or not.

• show_size_legend – Show size legend or not.

• name – Name of the output figure file.

• output – Save the figure as file or not.

• copy – Return a copy instead of writing to adata.

Returns

Return type

Nothing