msmu.pl.plot_pca

Plots PCA scores for a modality colored/grouped by observation metadata.

Parameters:

Name	Type	Description	Default
mdata	MuData	MuData object containing PCA results.	required
modality	str	Target modality; defaults to 'protein'.	'protein'
groupby	str | None	Observation column used to group traces.	None
colorby	str | None	Observation column used for coloring (when applicable).	None
template	str	Plotly template for colorway.	DEFAULT_TEMPLATE
pcs	tuple[int, int] | list[int]	Pair of principal component indices (1-based).	(1, 2)
obs_column	str | None	Observation column used for labeling/group resolution.	None
key	str	Base key for PCA outputs; expects coordinates in .obsm[key] and variance metadata in .uns[key]. Defaults to 'X_pca'.	'X_pca'
**kwargs	str	Additional layout options forwarded to Plotly.	{}

Returns:

Type	Description
Figure	Scatter plot of PCA scores.