API for aertslab/SCopeLoomR
Build .loom files (compatible with SCope) and extract data from .loom files.
| Global functions | |
|---|---|
| add_annotated_clustering | Man page Source code |
| add_annotation_by_cluster_annotation_mapping_df | Man page Source code |
| add_clustering | Man page Source code |
| add_clustering_markers | Man page Source code |
| add_col_attr | Man page Source code |
| add_default_embedding | Man page Source code |
| add_embedding | Man page Source code |
| add_embedding_from_dyno | Man page Source code |
| add_fbgn | Man page Source code |
| add_global_attr | Man page Source code |
| add_global_loom_spec_version | Source code |
| add_global_md_annotation | Man page Source code |
| add_global_md_clustering | Man page Source code |
| add_global_md_clustering_kv | Man page Source code |
| add_global_md_embedding | Man page Source code |
| add_global_md_metric | Man page Source code |
| add_global_md_regulon_thresholds | Man page Source code |
| add_hierarchy | Man page Source code |
| add_matrix | Man page Source code |
| add_regulons | Man page Source code |
| add_regulons_AUC | Man page Source code |
| add_row_attr | Man page Source code |
| add_seurat_clustering | Man page Source code |
| append_clustering_update_ca | Man page Source code |
| build_loom | Man page Source code |
| check_global_meta_data | Man page Source code |
| check_missings | Man page Source code |
| chunk_points | Man page Source code |
| clear_global_meta_data | Man page Source code |
| close_loom | Man page Source code |
| clusters_as_factor_ids | Source code |
| col_attrs_exists_by_key | Man page Source code |
| compress_gzb64 | Man page Source code |
| convert_to_loom_v3_spec | Man page Source code |
| create_cluster_annotation | Man page Source code |
| create_hierarchy | Man page Source code |
| create_trajectory | Man page Source code |
| create_trajectory_from_dyno | Man page Source code |
| create_trajectory_from_monocle | Man page Source code |
| decompress_gzb64 | Man page Source code |
| finalize | Man page Source code |
| flush | Man page Source code |
| get_all_cluster_markers | Man page Source code |
| get_all_clustering_annotations | Source code |
| get_cell_annotation | Man page Source code |
| get_cell_ids | Man page Source code |
| get_cell_mask_by_cluster_name | Man page Source code Source code |
| get_cluster_dgem_by_name | Man page Source code Source code |
| get_cluster_info_by_cluster_name | Man page Source code |
| get_cluster_info_by_id | Man page Source code |
| get_cluster_markers | Man page Source code |
| get_cluster_names | Man page Source code |
| get_clustering_annotations | Source code |
| get_clustering_by_id | Man page Source code |
| get_clustering_idx_by_cluster_name | Man page Source code |
| get_clusterings | Man page Source code |
| get_clusterings_with_name | Man page Source code |
| get_col_attr_by_key | Man page Source code |
| get_default_embedding | Man page Source code |
| get_dgem | Man page Source code |
| get_dspace | Man page Source code |
| get_dtype | Man page Source code |
| get_embedding_by_name | Man page Source code |
| get_embeddings | Man page Source code |
| get_genes | Man page Source code |
| get_global_attr | Man page Source code |
| get_global_loom_spec_version | Source code |
| get_global_md_clustering_by_id | Man page Source code |
| get_global_md_clustering_by_name | Man page Source code |
| get_global_md_clustering_info_by_name | Man page Source code |
| get_global_md_clusterings | Source code |
| get_global_meta_data | Man page Source code |
| get_next_embedding_id | Man page Source code |
| get_regulon_thresholds | Man page Source code |
| get_regulons | Man page Source code |
| get_regulons_AUC | Man page Source code |
| get_row_attr_by_key | Man page Source code |
| get_seurat_clustering_resolutions | Man page Source code |
| get_unique_clusters | Source code |
| global_meta_data_exists | Man page Source code |
| hdf5_utf8_encode | Man page Source code |
| hierarchy_exists | Man page Source code |
| init_global_md_embeddings | Man page Source code |
| init_global_meta_data | Man page Source code |
| is_base64_encoded | Man page Source code |
| is_gzipped | Man page Source code |
| is_json | Man page Source code |
| is_loom_spec_version_3_or_greater | Source code |
| is_order_conserved | Man page Source code |
| list_clusterings_names | Man page Source code |
| load_global_meta_data | Source code |
| lookup_all_global_attr | Man page Source code |
| lookup_loom | Man page Source code |
| open_loom | Man page Source code |
| project_waypoints | Source code |
| remove_col_attr | Man page Source code |
| remove_global_attr | Man page Source code |
| remove_row_attr | Man page Source code |
| sce | Man page |
| tSNE_expr | Man page |
| update_cluster_descriptions_by_cluster_annotation_mapping_df | Man page Source code |
| update_col_attr | Man page Source code |
| update_global_attr | Man page Source code |
| update_global_meta_data | Man page Source code |
| update_row_attr | Man page Source code |
