Files in ggpicrust2

Make 'PICRUSt2' Output Analysis and Visualization Easier

R/pathway_daa.R R/visualize_gsea.R R/compare_gsea_daa.R R/daa_results_df.R R/pathway_heatmap.R R/ko2kegg_abundance.R R/compare_metagenome_results.R R/pathway_gsea.R R/color_themes.R R/legend_annotation_utils.R R/ko_abundance.R R/compare_daa_results.R R/pathway_errorbar_table.R R/ggpicrust2_extended.R R/metacyc_abundance.R R/pathway_annotation.R R/pathway_pca.R R/kegg_abundance.R R/pathway_errorbar.R R/zzz.R R/metadata.R R/ggpicrust2.R R/gsea_pathway_annotation.R R/daa_annotated_results_df.R R/import_MicrobiomeAnalyst_daa_results.R inst/PICRUST_COMPATIBILITY.md inst/extdata/create_metacyc_to_ec_mapping.R tests/testthat/test-metacyc_error_handling_edge_cases.R tests/testthat/test-issue-166.R tests/testthat/test-cross_pathway_consistency.R tests/testthat/helper-skip.R tests/testthat/test-visualize_gsea.R tests/testthat/test-compare_gsea_daa-comprehensive.R tests/testthat/test-gsea_core_functions.R tests/testthat/test-metacyc_reference_data_loading.R tests/testthat/test-visualize_gsea_helper_functions.R tests/testthat/test-compare_gsea_daa.R tests/testthat/test-gsea_utility_functions_working.R tests/testthat/test-pathway_daa.R tests/testthat/test-gsea_pathway_annotation-comprehensive-fixed.R tests/testthat/test-visualize_gsea_pathway_labels.R tests/testthat/test-ko2kegg_abundance.R tests/testthat/test_examples.R tests/testthat/test-pathway_errorbar.R tests/testthat/test-compare_gsea_daa_advanced.R tests/testthat/test-picrust-compatibility.R tests/testthat/test-heatmap_plot_detailed.R tests/testthat/test-network_plot_detailed.R tests/testthat/test-pathway_annotation.R tests/testthat/test-p-value-formatting.R tests/testthat/test-pathway_pca.R tests/testthat/test-go_pathway_support.R tests/testthat/test-metacyc_gsea_implementation.R tests/testthat/test-pathway_gsea.R tests/testthat/test-gsea_pathway_annotation.R tests/testthat/test-gsea_pathway_annotation-comprehensive.R tests/testthat/test-metacyc_annotation_system.R tests/testthat/test-pathway_errorbar-comprehensive.R tests/testthat/test-error_handling_edge_cases.R tests/testthat/test-ggpicrust2_extended.R tests/testthat/TEST_SUITE_DOCUMENTATION.md tests/testthat/test-gsea_utilities_final.R tests/testthat/test-pathway_heatmap.R tests/testthat/test-visualize_gsea_edge_cases.R tests/testthat/test-gsea_mathematical_correctness.R man/pathway_gsea.Rd man/ggpicrust2.Rd man/daa_results_df.Rd man/ggpicrust2_extended.Rd man/get_color_theme.Rd man/legend_annotation_utils.Rd man/compare_daa_results.Rd man/create_legend_theme.Rd man/preview_color_theme.Rd man/create_heatmap_plot.Rd man/resolve_annotation_overlaps.Rd man/pathway_errorbar.Rd man/pathway_errorbar_table.Rd man/ko_abundance.Rd man/validate_group_sizes.Rd man/create_pathway_class_theme.Rd man/visualize_gsea.Rd man/compare_metagenome_results.Rd man/get_available_themes.Rd man/validate_abundance_data.Rd man/compare_gsea_daa.Rd man/prepare_gene_sets.Rd man/safe_extract.Rd man/gsea_pathway_annotation.Rd man/metadata.Rd man/create_gradient_colors.Rd man/smart_color_selection.Rd man/get_significance_stars.Rd man/pathway_heatmap.Rd man/pathway_daa.Rd man/create_dendrogram.Rd man/create_network_plot.Rd man/get_significance_colors.Rd man/format_pvalue_smart.Rd man/ko2kegg_abundance.Rd man/pathway_annotation.Rd man/pathway_pca.Rd man/kegg_abundance.Rd man/import_MicrobiomeAnalyst_daa_results.Rd man/calculate_rank_metric.Rd man/calculate_smart_text_size.Rd man/color_themes.Rd man/daa_annotated_results_df.Rd man/create_empty_plot.Rd man/generate_nested_colors.Rd man/run_fgsea.Rd man/create_basic_go_mapping.Rd man/metacyc_abundance.Rd