_Assay.clustered_ids

missionbio.mosaic.assay._Assay.clustered_ids

_Assay.clustered_ids(orderby: Union[str, ndarray, DataFrame], features: Optional[Sequence] = None, override: bool = False)

Hierarchical clustering of ids.

Parameters:

orderbystr / np.ndarray / pd.DataFrame

An attribute with at least one dimension equal to the number of ids in the assay. Uses get_attribute() to retrieve the value constrained by col

featureslist-like

The subset of ids to use and return, in case orderby is found in the layers, otherwise it is the name of the ids to be given to the orderby attribute.

overridebool

Continue clustering even if the number of id is greater than 1,000.

Returns:

numpy.ndarray

ordered ids

Raises:

ValueError

When the labels are not set.

Exception

When number of id in the assay is greater than 1,000. This can take a long time to process, hence denied.

Warning

If the number of id is greater than 1,000 and override is passed.

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< Class _Assay