Index C | E | F | G | I | K | M | P | Q | R | S | U | W C compare_distances() (in module scatlastb_utils.metrics) compute_missing_distances() (in module scatlastb_utils.metrics) copy() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) E embedding() (in module scatlastb_utils.pl) F find_library_obs() (in module scatlastb_utils.pp) G get_adjacency() (in module scatlastb_utils.metrics) get_config() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_datasets() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_defaults() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_file() (scatlastb_utils.pipeline.ModuleConfig.InputFiles method) get_files() (scatlastb_utils.pipeline.ModuleConfig.InputFiles method) get_files_per_dataset() (scatlastb_utils.pipeline.ModuleConfig.InputFiles method) get_for_dataset() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_from_parameters() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) get_input_file() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_input_file_wildcards() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_input_files() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_input_files_per_dataset() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_knn() (in module scatlastb_utils.metrics) get_output_files() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_parameters() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) get_paramspace() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) get_profile() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_resource() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_wildcard_names() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) get_wildcards() (scatlastb_utils.pipeline.ModuleConfig.InputFiles method) (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) I InputFiles (class in scatlastb_utils.pipeline.ModuleConfig) K knn_overlap() (in module scatlastb_utils.metrics) M majority_reference() (in module scatlastb_utils.tl) ModuleConfig (class in scatlastb_utils.pipeline.ModuleConfig) P parse() (scatlastb_utils.pipeline.ModuleConfig.InputFiles static method) PipelineConfig (class in scatlastb_utils.pipeline) plot_distances_scatter() (in module scatlastb_utils.metrics) plot_ranked_distances() (in module scatlastb_utils.metrics) pseudobulk() (in module scatlastb_utils.pp) Q qc_joint() (in module scatlastb_utils.pl) R read_anndata() (in module scatlastb_utils.io) read_slot() (in module scatlastb_utils.io) S set_datasets() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) set_default_target() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) set_defaults() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) set_defaults_per_dataset() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) set_file_per_dataset() (scatlastb_utils.pipeline.ModuleConfig.InputFiles method) set_wildcards() (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) strip_barcodes() (in module scatlastb_utils.pp) subset_by_query() (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) U update() (scatlastb_utils.pipeline.ModuleConfig.WildcardParameters method) update_file_for_module_param() (scatlastb_utils.pipeline.PipelineConfig method) update_input_files_per_dataset() (scatlastb_utils.pipeline.PipelineConfig method) update_inputs() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) update_parameters() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) W WildcardParameters (class in scatlastb_utils.pipeline.ModuleConfig) write_output_files() (scatlastb_utils.pipeline.ModuleConfig.ModuleConfig method) write_zarr_linked() (in module scatlastb_utils.io)