sccloud.correct_batch

sccloud.correct_batch(data, features=None)[source]

Batch correction on data.

Parameters

  • data (anndata.AnnData) – Annotated data matrix with rows for cells and columns for genes.

  • features (str, optional, default: None) – Features to be included in batch correction computation. If None, simply consider all features.

Return type

None

Returns

  • None

  • Update data.X by the corrected count matrix.

Examples

>>> scc.correct_batch(adata, features = "highly_variable_features")