Index _ | A | B | C | D | F | G | K | M | N | P | R | S _ __init__() (BAITS.st.tl.Cluster method) (BAITS.st.tl.ClusterAutoK method) _boxplot() (in module BAITS.VDJ.pl) _plot_bar() (in module BAITS.VDJ.pl) _plot_xcr() (in module BAITS.VDJ.pl) _save_data() (in module BAITS.st.gr) _scatter_plot() (in module BAITS.VDJ.pl) A aggregate_clone_df() (in module BAITS.VDJ.tl) aggregate_neighbors() (in module BAITS.st.gr) B BAITS.st.gr module BAITS.st.pl module BAITS.st.tl module BAITS.VDJ.pl module BAITS.VDJ.tl module batch_process() (in module BAITS.st.tl) C calculate_cdr3_length() (in module BAITS.VDJ.tl) calculate_clone_niche() (in module BAITS.VDJ.tl) calculate_qc_clones() (in module BAITS.VDJ.tl) calculate_qc_umis() (in module BAITS.VDJ.tl) Clonal_family_diversification() (in module BAITS.VDJ.tl) Clonality() (in module BAITS.VDJ.tl) Cluster (class in BAITS.st.tl) cluster_bcrs() (in module BAITS.VDJ.tl) cluster_group() (in module BAITS.VDJ.tl) ClusterAutoK (class in BAITS.st.tl) clustering_results() (in module BAITS.st.pl) compute_grouped_index() (in module BAITS.VDJ.tl) compute_migraIdx() (in module BAITS.VDJ.tl) D dbscan_cluster() (in module BAITS.st.tl) F filter_clones() (in module BAITS.VDJ.tl) filter_clones_spatial() (in module BAITS.VDJ.tl) filter_umi() (in module BAITS.VDJ.tl) filter_umi_spatial() (in module BAITS.VDJ.tl) G get_adj() (in module BAITS.st.gr) gini_index() (in module BAITS.VDJ.tl) K kde_filter() (in module BAITS.st.tl) kde_res() (in module BAITS.st.pl) M module BAITS.st.gr BAITS.st.pl BAITS.st.tl BAITS.VDJ.pl BAITS.VDJ.tl N normalize_shannon_entropy() (in module BAITS.VDJ.tl) P process_group_with_neighbor_count() (in module BAITS.VDJ.tl) R renyi_entropy() (in module BAITS.VDJ.tl) S shannon_entropy() (in module BAITS.VDJ.tl) silhouette_scores() (in module BAITS.st.pl) spatial_neighbors() (in module BAITS.st.gr) stat_clone() (in module BAITS.VDJ.tl)