BAITS.st.tl.dbscan_cluster

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BAITS.st.tl.dbscan_cluster#

BAITS.st.tl.dbscan_cluster(adata_tmp, eps=50, min_samples=5, plot=True, spot_size=50, cmap='tab20_r', title='BLA_id')#

Perform DBSCAN clustering on spatial coordinates in an AnnData object.

Parameters:

  • adata_tmp – The AnnData object containing spatial coordinates in obsm['spatial'].

  • eps (default: 50) – The maximum distance between two samples for one to be considered as in the neighborhood of the other. Default is 50.

  • min_samples (default: 5) – The number of samples in a neighborhood for a point to be considered as a core point. Default is 5.

  • plot (bool, optional (default=True)) – If True, generates a spatial scatter plot visualizing the identified clusters.

  • spot_size (float, optional (default=50)) – Marker size for individual cells in the spatial visualization plot.

Returns:

The updated AnnData object with a new column BLA_id in obs, containing the DBSCAN cluster labels.

Return type:

AnnData

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