pytometry.pp.find_indexes

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pytometry.pp.find_indexes#

pytometry.pp.find_indexes(adata, var_key=None, key_added='signal_type', data_type='facs', inplace=True)#

Find channels of interest for computing compensation.

Parameters:

  • adata (AnnData) – AnnData object.

  • var_key (str (default: None)) – Key where to check if a feature is an area, height etc. type of value. Use var_names if None.

  • key_added (str (default: 'signal_type')) – Key where result vector is added to the adata.var.

  • data_type (Literal['facs', 'cytof'] (default: 'facs')) – Type of cytometry data

  • inplace (bool (default: True)) – Update adata and return None if True. Otherwise, return a copy of adata with the changes.

Return type:

AnnData | None

Returns:

Depending on inplace, returns or updates adata with the following updated field adata.var[f'{key_added}']

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