build_ont_annot_app     Build the Ontology Annotation Shiny app
create_exposomicset     Create an Exposomicset Object
download_dataset        Download and cache a tidyexposomics dataset
extract_omics_exposure_df
                        Extract Merged Omics and Exposure Data Frame
extract_results         Extract Results from 'MultiAssayExperiment'
                        Metadata
extract_results_excel   Export tidyexposomics Results to Excel
extract_top_factor_features
                        Extract Top Contributing Features for Factors
filter_missing          Filter Features and Variables with High
                        Missingness
filter_non_normal       Filter Non-Normal Exposure Variables
filter_omics            Filter low-quality features in omics assays
filter_sample_outliers
                        Filter Sample Outliers
load_annotation_data    Load Ontology Data
make_example_data       Generate Example Data for Testing
pivot_exp               Pivot a selected omics dataset from a
                        MultiAssayExperiment into tidybulk format
pivot_feature           Extract Feature Metadata from a
                        MultiAssayExperiment
pivot_sample            Extract Sample Metadata from
                        MultiAssayExperiment or SummarizedExperiment
plot_association        Plot Association Results (Unified Forest Plot)
plot_circos_correlation
                        Plot Circular Network of Exposure Relationships
plot_correlation_summary
                        Plot Correlation Summary from Exposure-Feature
                        Correlations
plot_correlation_tile   Plot Correlation Tilemap
plot_enrichment         Plot Enrichment Results from exposomicset
plot_exposure_impact    Plot Exposure Impact on Network Centrality
                        Metrics
plot_exposures          Plot Exposure Distributions by Category or
                        Group
plot_factor_summary     Plot Summary of Factor Contributions from
                        Multi-Omics Integration
plot_manhattan          Plot a Manhattan-style ExWAS summary across
                        omics categories
plot_missing            Plot Missing Data Across Exposure and Omic
                        Layers
plot_network            Plot Network Graph of Features or Exposures
plot_normality_summary
                        Plot Normality Summary of Exposure Variables
plot_pca                Plot PCA Results for Features and Samples
plot_sample_clusters    Plot Sample Clusters
plot_sensitivity_summary
                        Plot Sensitivity Analysis Summary
plot_top_factor_features
                        Plot Top Features by Factor from Integration
                        Results
plot_volcano            Volcano Plot of Differential Abundance
run_association         Run Association Analysis
run_cluster_samples     Cluster Samples Based on Exposure Data
run_correlation         Run Correlation Analysis
run_create_network      Create Correlation Network from Feature Data
run_differential_abundance
                        Run Differential Abundance Analysis
run_enrichment          Perform enrichment analysis on selected
                        features from a exposomicset object
run_exposome_score      Compute Composite Exposome Scores
run_exposure_impact     Calculate Exposure Impact from Feature-Exposure
                        Correlation Networks
run_factor_overlap      Identify and Annotate Shared Top Features
                        Across Integration Factors
run_impute_missing      Impute Missing Exposure and Omics Data in a
                        MultiAssayExperiment
run_multiomics_integration
                        Run Multi-Omics Integration
run_normality_check     Assess Normality of Exposure Variables
run_pca                 Perform Principal Component Analysis (PCA)
run_pipeline_summary    Summarize and Visualize Analysis Pipeline Steps
run_sensitivity_analysis
                        Run Sensitivity Analysis for Differential
                        Abundance
run_summarize_exposures
                        Summarize Exposure Variables
tidyexposomics_example
                        Example exposome multi-omics dataset
transform_exposure      Transform Exposure Variables for Normality
