aggregate_taxa_contributions
                        Aggregate taxa contributions for visualization
calculate_smart_text_size
                        Smart Text Size Calculator
color_themes            Color Theme System for ggpicrust2
compare_daa_results     Compare the Consistency of Statistically
                        Significant Features
compare_gsea_daa        Compare GSEA and DAA results
compare_metagenome_results
                        Compare Metagenome Results
create_gradient_colors
                        Create Gradient Colors
create_legend_theme     Create Enhanced Legend Theme
create_pathway_class_theme
                        Create Pathway Class Annotation Theme
daa_annotated_results_df
                        Differentially Abundant Analysis Results with
                        Annotation
daa_results_df          DAA Results Dataset
ec_reference            EC Number Reference Dataset
format_pvalue_smart     Smart P-value Formatting
get_available_themes    Get Available Color Themes
get_color_theme         Get Color Theme
get_significance_colors
                        Get Significance Colors
get_significance_stars
                        Get Significance Stars
ggpicrust2              This function integrates pathway
                        name/description annotations, ten of the most
                        advanced differential abundance (DA) methods,
                        and visualization of DA results.
gsea_pathway_annotation
                        Annotate GSEA results with pathway information
import_MicrobiomeAnalyst_daa_results
                        Import Differential Abundance Analysis (DAA)
                        results from MicrobiomeAnalyst
kegg_abundance          KEGG Abundance Dataset
kegg_pathway_reference
                        KEGG Pathway Name Reference Dataset
ko2kegg_abundance       Convert KO abundance in picrust2 export files
                        to KEGG pathway abundance
ko_abundance            KO Abundance Dataset
ko_reference            KEGG Orthology (KO) Reference Dataset
ko_to_go_reference      KO to GO Reference Mapping Dataset
ko_to_kegg_reference    KO to KEGG Pathway Reference Data
legend_annotation_utils
                        Legend and Annotation Utilities for ggpicrust2
metacyc_abundance       MetaCyc Abundance Dataset
metacyc_reference       MetaCyc Pathway Reference Dataset
metacyc_to_ec_reference
                        MetaCyc Pathway to EC Number Mapping Dataset
metadata                Metadata for ggpicrust2 Demonstration
pathway_annotation      Pathway information annotation
pathway_daa             Differential Abundance Analysis for Predicted
                        Functional Pathways
pathway_errorbar        The function pathway_errorbar() is used to
                        visualize the results of functional pathway
                        differential abundance analysis as error bar
                        plots.
pathway_errorbar_table
                        Generate Abundance Statistics Table for Pathway
                        Analysis
pathway_gsea            Gene Set Enrichment Analysis for PICRUSt2
                        output
pathway_heatmap         Create pathway heatmap with support for
                        multiple grouping variables
pathway_pca             Perform Principal Component Analysis (PCA) on
                        functional pathway abundance data
pathway_ridgeplot       Ridge Plot for GSEA Results
pathway_volcano         Volcano Plot for Pathway Differential Abundance
                        Analysis
prepare_gene_sets       Prepare gene sets for GSEA
preview_color_theme     Preview Color Theme
read_contrib_file       Read PICRUSt2 contribution file
read_pathway_contrib_file
                        Read PICRUSt2 pathway-level contribution file
read_strat_file         Read PICRUSt2 stratified abundance file
resolve_annotation_overlaps
                        Detect and Resolve Annotation Overlaps
safe_extract            Safely Extract Elements from a List
smart_color_selection   Smart Color Selection
taxa_contribution_bar   Stacked bar plot of taxa contributions
taxa_contribution_heatmap
                        Heatmap of taxa contributions across functions
visualize_gsea          Visualize GSEA results
