Index B | C | D | F | G | I | J | K | M | N | O | P | R | S | V B BatchCorrection (class in scib_metrics.benchmark) benchmark() (scib_metrics.benchmark.Benchmarker method) Benchmarker (class in scib_metrics.benchmark) BioConservation (class in scib_metrics.benchmark) C cdist() (in module scib_metrics.utils) check_square() (in module scib_metrics.utils) clisi_knn (scib_metrics.benchmark.BioConservation attribute) clisi_knn() (in module scib_metrics) compute_simpson_index() (in module scib_metrics.utils) convert_knn_graph_to_idx() (in module scib_metrics.utils) D diffusion_nn() (in module scib_metrics.utils) distances (scib_metrics.nearest_neighbors.NeighborsResults attribute), [1] F fit() (scib_metrics.utils.KMeans method) G get_results() (scib_metrics.benchmark.Benchmarker method) graph_connectivity (scib_metrics.benchmark.BatchCorrection attribute) graph_connectivity() (in module scib_metrics) I ilisi_knn (scib_metrics.benchmark.BatchCorrection attribute) ilisi_knn() (in module scib_metrics) indices (scib_metrics.nearest_neighbors.NeighborsResults attribute), [1] isolated_labels (scib_metrics.benchmark.BioConservation attribute) isolated_labels() (in module scib_metrics) J jax_approx_min_k() (in module scib_metrics.nearest_neighbors) jax_fix_no_kernel_image() (scib_metrics._settings.ScibConfig method) jax_preallocate_gpu_memory (scib_metrics._settings.ScibConfig attribute) K kbet() (in module scib_metrics) kbet_per_label (scib_metrics.benchmark.BatchCorrection attribute) kbet_per_label() (in module scib_metrics) KMeans (class in scib_metrics.utils) knn_graph_connectivities (scib_metrics.nearest_neighbors.NeighborsResults attribute) knn_graph_distances (scib_metrics.nearest_neighbors.NeighborsResults attribute) M module scib_metrics scib_metrics.benchmark scib_metrics.nearest_neighbors scib_metrics.utils N n_neighbors (scib_metrics.nearest_neighbors.NeighborsResults attribute) n_samples (scib_metrics.nearest_neighbors.NeighborsResults attribute) NeighborsResults (class in scib_metrics.nearest_neighbors) nmi_ari_cluster_labels_kmeans (scib_metrics.benchmark.BioConservation attribute) nmi_ari_cluster_labels_kmeans() (in module scib_metrics) nmi_ari_cluster_labels_leiden (scib_metrics.benchmark.BioConservation attribute) nmi_ari_cluster_labels_leiden() (in module scib_metrics) O one_hot() (in module scib_metrics.utils) P pca() (in module scib_metrics.utils) pcr_comparison (scib_metrics.benchmark.BatchCorrection attribute) pcr_comparison() (in module scib_metrics) pdist_squareform() (in module scib_metrics.utils) plot_results_table() (scib_metrics.benchmark.Benchmarker method) prepare() (scib_metrics.benchmark.Benchmarker method) principal_component_regression() (in module scib_metrics.utils) progress_bar_style (scib_metrics._settings.ScibConfig attribute) pynndescent() (in module scib_metrics.nearest_neighbors) R reset_logging_handler() (scib_metrics._settings.ScibConfig method) S scib_metrics module scib_metrics.benchmark module scib_metrics.nearest_neighbors module scib_metrics.utils module ScibConfig (class in scib_metrics._settings) silhouette_batch (scib_metrics.benchmark.BatchCorrection attribute) silhouette_batch() (in module scib_metrics) silhouette_label (scib_metrics.benchmark.BioConservation attribute) silhouette_label() (in module scib_metrics) silhouette_samples() (in module scib_metrics.utils) subset_neighbors() (scib_metrics.nearest_neighbors.NeighborsResults method) V verbosity (scib_metrics._settings.ScibConfig attribute)