scSemiProfiler.utils.compare_adata_umaps

scSemiProfiler.utils.compare_adata_umaps(semidata, gtdata, name='testexample', celltype_key='celltypes', save=None)

Compare the real-profiled and semi-profiled datasets by plotting them in a same UMAP

Parameters

• semidata (anndata._core.anndata.AnnData) – Semi-profiled dataset

• gtdata (anndata._core.anndata.AnnData) – Real-profiled dataset

• name (str) – Project name

• celltype_key (str) – The key in .obs specifying the cell type information

• save – Path within the ‘figures’ folder to save the plot

Return type

typing.Tuple[anndata._core.anndata.AnnData, anndata._core.anndata.AnnData, anndata._core.anndata.AnnData]

Returns

• combdata – Combined dataset, with real-profiled cells in the front

• gtdata – Real-profiled dataset

• semidata – Semi-profiled dataset

Example

>>> combdata, gtdata, semidata = compare_adata_umaps(
>>> inferred_rep, # inferred representatives from the last round
>>> real_rep,     # real-profiled representatives from the current round
>>> name = name,  # project name
>>> celltype_key = 'celltypes'
>>> )