omicverse.micro.plot_embedding_biplot

omicverse.micro.plot_embedding_biplot#

omicverse.micro.plot_embedding_biplot(mmvec, components=(0, 1), label_top=5, ax=None)[source]#

Biplot of microbe + metabolite embeddings in the MMvec latent space.

Draws two scatter point clouds in the same panel: microbes (rows of mmvec.U_) and metabolites (rows of mmvec.V_) projected onto the chosen components (default the first two latent factors). Annotates the label_top items farthest from the origin in each cloud — these are the entities most strongly associated with that pair of latent factors.

Parameters:

  • mmvec (MMvec) – Fitted model.

  • components ((int, int), default (0, 1)) – Zero-indexed latent factors to plot.

  • label_top (int, default 5) – Number of microbes / metabolites to annotate in each cloud.

  • ax (matplotlib axes, optional)

Return type:

matplotlib axes.

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