API for ggpicrust2
Make 'PICRUSt2' Output Analysis and Visualization Easier
| Global functions | |
|---|---|
| .as_color_vector | Man page Source code |
| .build_continuous_scale | Man page Source code |
| .build_discrete_fill_for_direction | Man page Source code |
| .build_heatmap_col_fun | Man page Source code |
| .is_ggplot_scale | Man page Source code |
| .onAttach | Source code |
| .onLoad | Source code |
| aggregate_taxa_contributions | Man page Source code |
| align_samples | Source code |
| annotate_go_gsea | Source code |
| annotate_kegg_gsea | Source code |
| annotate_metacyc_gsea | Source code |
| annotate_pathways | Source code |
| apply_taxonomy | Source code |
| build_design_matrix | Man page Source code |
| calculate_abundance_stats | Man page Source code |
| calculate_log2_fold_change | Man page Source code |
| calculate_pseudocount | Man page Source code |
| calculate_rank_metric | Man page Source code |
| calculate_smart_text_size | Man page Source code |
| clean_ko_abundance | Source code |
| color_themes | Man page |
| compare_daa_results | Man page Source code |
| compare_gsea_daa | Man page Source code |
| compare_metagenome_results | Man page Source code |
| create_dendrogram | Man page Source code |
| create_empty_daa_result | Source code |
| create_empty_gsea_result | Source code |
| create_empty_plot | Man page Source code |
| create_gradient_colors | Man page Source code |
| create_heatmap_plot | Man page Source code |
| create_legend_theme | Man page Source code |
| create_network_plot | Man page Source code |
| create_pathway_class_theme | Man page Source code |
| create_progress_bar | Source code |
| daa_annotated_results_df | Man page |
| daa_results_df | Man page |
| data_utils | Man page |
| ec_reference | Man page |
| find_sample_column | Source code |
| format_linda_output | Source code |
| format_pvalue_smart | Man page Source code |
| generate_nested_colors | Man page Source code |
| get_available_themes | Man page Source code |
| get_color_theme | Man page Source code |
| get_kegg_with_cache | Source code |
| get_significance_colors | Man page Source code |
| get_significance_stars | Man page Source code |
| ggpicrust2 | Man page Source code |
| gsea_pathway_annotation | Man page Source code |
| import_MicrobiomeAnalyst_daa_results | Man page Source code |
| kegg_abundance | Man page |
| kegg_pathway_reference | Man page |
| ko2kegg_abundance | Man page |
| ko_abundance | Man page |
| ko_reference | Man page |
| ko_to_go_reference | Man page |
| ko_to_kegg_reference | Man page |
| legend_annotation_utils | Man page |
| load_reference_data | Source code |
| log_message | Source code |
| metacyc_abundance | Man page |
| metacyc_reference | Man page |
| metacyc_to_ec_reference | Man page |
| metadata | Man page |
| parse_taxonomy_string | Source code |
| pathway_annotation | Man page Source code |
| pathway_daa | Man page Source code |
| pathway_errorbar | Man page Source code |
| pathway_errorbar_table | Man page Source code |
| pathway_gsea | Man page Source code |
| pathway_heatmap | Man page Source code |
| pathway_pca | Man page Source code |
| pathway_ridgeplot | Man page Source code |
| pathway_volcano | Man page Source code |
| perform_aldex2_analysis | Source code |
| perform_deseq2_analysis | Source code |
| perform_edger_analysis | Source code |
| perform_lefser_analysis | Source code |
| perform_limma_voom_analysis | Source code |
| perform_linda_analysis | Source code |
| perform_maaslin2_analysis | Source code |
| perform_metagenomeseq_analysis | Source code |
| prepare_gene_sets | Man page Source code |
| preview_color_theme | Man page Source code |
| process_kegg_annotations | Source code |
| read_abundance_file | Source code |
| read_contrib_file | Man page Source code |
| read_strat_file | Man page Source code |
| require_column | Man page Source code |
| require_package | Source code |
| resolve_annotation_overlaps | Man page Source code |
| run_fgsea | Man page Source code |
| run_limma_gsea | Man page Source code |
| safe_extract | Man page Source code |
| samples_match | Source code |
| smart_color_selection | Man page Source code |
| taxa_contribution_bar | Man page Source code |
| taxa_contribution_heatmap | Man page Source code |
| validate_abundance | Source code |
| validate_choice | Source code |
| validate_daa_input | Source code |
| validate_daa_results | Man page Source code |
| validate_dataframe | Source code |
| validate_feature_ids | Source code |
| validate_group | Source code |
| validate_group_sizes | Man page Source code |
| validate_metadata | Source code |
| validate_numeric_matrix | Source code |
| validate_zero_abundance | Source code |
| visualize_gsea | Man page Source code |
| with_retry | Source code |
