scib_metrics.benchmark.BioConservation#
- class scib_metrics.benchmark.BioConservation(isolated_labels=True, nmi_ari_cluster_labels_leiden=False, nmi_ari_cluster_labels_kmeans=True, silhouette_label=True, clisi_knn=True)[source]#
Specification of bio conservation metrics to run in the pipeline.
Metrics can be included using a boolean flag. Custom keyword args can be used by passing a dictionary here. Keyword args should not set data-related parameters, such as
X
orlabels
.