opendvp.pl.pca_loadings

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opendvp.pl.pca_loadings#

pca_loadings(adata, top=30, n_pcs=2, return_fig=False, ax=None, **kwargs)#

Plot PCA protein loadings for the top features in the first two principal components.

Parameters:

  • adata (anndata.AnnData) – Annotated data matrix with PCA results in adata.varm[‘PCs’] and adata.uns[‘pca’][‘variance_ratio’].

  • top (int, optional) – Number of top features to label per PC.

  • n_pcs (int, optional) – Number of principal components to plot (default 2).

  • return_fig (bool, optional) – If True, returns the matplotlib Figure object for further customization. If False, shows the plot.

  • ax (matplotlib.axes.Axes, optional) – Axes object to plot on. If None, a new figure and axes are created.

  • **kwargs – Additional keyword arguments passed to matplotlib scatter.

Returns:

fig – The figure object if return_fig is True, otherwise None.

Return type:

matplotlib.figure.Figure or None

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