popv.annotation.annotate_data

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popv.annotation.annotate_data#

popv.annotation.annotate_data(adata, methods=None, save_path=None, methods_kwargs=None)[source]#

Annotate an AnnData dataset preprocessed by popv.preprocessing.Process_Query by using the annotation pipeline.

Parameters:

  • adata (AnnData) – AnnData of query and reference cells. AnnData object after running popv.preprocessing.Process_Query.

  • methods – List of methods used for cell-type annotation. Defaults to all algorithms.

  • save_path (str | None (default: None)) – Path were annotated query data is saved. Defaults to None and is not saving data.

  • methods_kwargs (dict | None (default: None)) – Dictionary, where keys are used methods and values contain non-default parameters. Default to empty-dictionary.

Return type:

None

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