metachat.pp.LRC_filtered

metachat.pp.LRC_filtered(adata, LRC_name=None, LRC_cluster=None, LRC_source='marker', copy=False)[source]

Assign final LRC (long-range channel) clusters after local density clustering.

This function uses the cluster assignment results from mc.pp.LRC_cluster() to label candidate LRC points and remove outliers. The output is stored in adata.obs['LRC_<LRC_name>_<LRC_source>_filtered'].

Parameters

adataanndata.AnnData: Annotated data matrix (n_obs × n_var).
LRC_namestr: Name of the long-range channel (e.g. 'Blood' or 'CSF').
LRC_clusterpydpc.dpc.Cluster: The clustering object returned by mc.pp.LRC_cluster().
LRC_sourcestr, default=’marker’: Type of feature used for LRC identification (included in the key name).
copybool, default=False: If True, return a copy of the modified AnnData. Otherwise, modify in place and return None.

Returns

adataanndata.AnnData or None: The AnnData object with a new categorical column 'LRC_<LRC_name>_<LRC_source>_filtered' in .obs. Cluster numbers indicate LRC cluster IDs (starting from 1), while 0 indicates non-LRC or outlier points. Returns None if copy=False.

Notes

This function should be run after both mc.pp.LRC_unfiltered() and mc.pp.LRC_cluster().