API for rnabioco/AVIDtools
A collection of single-cell V(D)J tools
| Global functions | |
|---|---|
| %+replace% | Man page |
| %||% | Man page |
| .add_axis_label | Source code |
| .add_corner_label | Source code |
| .add_legend_label | Source code |
| .add_meta | Source code |
| .add_meta.Seurat | Source code |
| .add_meta.SingleCellExperiment | Source code |
| .add_meta.default | Source code |
| .add_missing_zeros | Source code |
| .add_n_label | Source code |
| .add_na | Source code |
| .add_no_label | Source code |
| .add_padding | Source code |
| .add_progress_step | Source code |
| .calc_div | Source code |
| .calc_edgeR | Source code |
| .calc_freq | Source code |
| .calc_freq_grp | Source code |
| .calc_n | Source code |
| .calc_overlap | Source code |
| .calc_p | Source code |
| .calc_pvalue | Source code |
| .check_arg | Source code |
| .check_args | Source code |
| .check_group_cols | Source code |
| .check_matching_vals | Source code |
| .check_obj_cols | Source code |
| .check_packages | Source code |
| .check_possible_values | Source code |
| .check_sep | Source code |
| .check_usage_args | Source code |
| .classify_vdj | Source code |
| .create_bars | Source code |
| .create_boxes | Source code |
| .create_circos | Source code |
| .create_gg_heatmap | Source code |
| .create_grouped_plot | Source code |
| .create_heatmap | Source code |
| .create_hist | Source code |
| .create_plot | Source code |
| .create_scatter | Source code |
| .data | Man page |
| .detect_sep | Source code |
| .detect_seq_type | Source code |
| .extract_cell_prefix | Source code |
| .extract_isotypes | Source code |
| .extract_mut_coords | Source code |
| .extract_pattern | Source code |
| .extract_vdj_coords | Source code |
| .fetch_seqs | Source code |
| .filter_chains | Source code |
| .filter_top_genes | Source code |
| .format_cell_prefixes | Source code |
| .format_n_label | Source code |
| .format_plot_data | Source code |
| .format_plot_data.Seurat | Source code |
| .format_plot_data.default | Source code |
| .format_pvalue | Source code |
| .get_axis_label | Source code |
| .get_label_just | Source code |
| .get_matching_clmns | Source code |
| .get_meta | Source code |
| .get_meta.Seurat | Source code |
| .get_meta.SingleCellExperiment | Source code |
| .get_meta.default | Source code |
| .get_top_genes | Source code |
| .get_uniq_text_args | Source code |
| .get_unique_values | Source code |
| .get_vdj_cols | Source code |
| .get_vdj_path | Source code |
| .identify_paired | Source code |
| .lift | Source code |
| .load_aggr_data | Source code |
| .load_muts | Source code |
| .load_vdj_data | Source code |
| .malformed_data_error | Source code |
| .map_muts | Source code |
| .merge_meta | Source code |
| .nest_vdj | Source code |
| .order_lvls | Source code |
| .parse_label_params | Source code |
| .plot_paired_usage | Source code |
| .plot_single_usage | Source code |
| .prepare_meta | Source code |
| .print_import_summary | Source code |
| .rank_boxplot | Source code |
| .rank_values | Source code |
| .remove_upper_triangle | Source code |
| .replace_none | Source code |
| .set_circos_cols | Source code |
| .set_colors | Source code |
| .set_lims | Source code |
| .set_lvls | Source code |
| .set_other_grps | Source code |
| .standardize_aes | Source code |
| .str_extract_all | Source code |
| .to_tibble | Source code |
| .trim_seq | Source code |
| .unnest_vdj | Source code |
| := | Man page |
| as_label | Man page |
| as_name | Man page |
| calc_diversity | Man page Source code |
| calc_frequency | Man page Source code |
| calc_gene_pairs | Man page Source code |
| calc_gene_usage | Man page Source code |
| calc_mds | Man page Source code |
| calc_similarity | Man page Source code |
| cluster_sequences | Man page Source code |
| define_clonotypes | Man page Source code |
| djvdj | Man page |
| djvdj-package | Man page |
| djvdj_theme | Man page Source code |
| enquo | Man page |
| enquos | Man page |
| fetch_top_clones | Source code |
| fetch_vdj | Man page Source code |
| filter_vdj | Man page Source code |
| import_vdj | Man page Source code |
| mutate_meta | Man page Source code |
| mutate_vdj | Man page Source code |
| plot_clone_frequency | Man page Source code |
| plot_diversity | Man page Source code |
| plot_frequency | Man page Source code |
| plot_gene_pairs | Man page Source code |
| plot_gene_usage | Man page Source code |
| plot_histogram | Man page Source code |
| plot_mds | Man page Source code |
| plot_motifs | Man page Source code |
| plot_numerical | Man page |
| plot_rarefaction | Man page Source code |
| plot_scatter | Man page Source code |
| plot_similarity | Man page Source code |
| plot_violin | Man page Source code |
| splen_meta | Man page |
| summarize_vdj | Man page Source code |
| test_all_args | Source code |
| tidyeval | Man page |
| tiny_sce | Man page |
| trim_lab | Source code |
| vdj_sce | Man page |
