omicverse.micro.Ordinate

class omicverse.micro.Ordinate(adata, dist_key='braycurtis')

Reduce a sample × sample distance matrix to 2-D / 3-D coords.

参数:

• adata (AnnData) – AnnData with a distance matrix already computed by Beta.run() (stored in adata.obsp[dist_key]).

• dist_key (str (default: 'braycurtis')) – Key into adata.obsp. Defaults to 'braycurtis'.

__init__(adata, dist_key='braycurtis')

Methods

__init__(adata[, dist_key])
nmds([n, random_state, write_to_obsm])	Non-metric multi-dimensional scaling on the distance matrix.
pcoa([n, write_to_obsm])	Principal coordinates analysis.
proportion_explained()	Eigenvalue proportions from the most recent PCoA call.