# Make 'PICRUSt2' Output Analysis and Visualization Easier

## Documentation for package ‘ggpicrust2’ version 2.1.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

compare_daa_results | Compare the Consistency of Statistically Significant Features
compare_gsea_daa | Compare GSEA and DAA results
compare_metagenome_results | Compare Metagenome Results
daa_annotated_results_df | Differentially Abundant Analysis Results with Annotation
daa_results_df | DAA Results Dataset
ggpicrust2 | This function integrates pathway name/description annotations, ten of the most advanced differential abundance (DA) methods, and visualization of DA results.
ggpicrust2_extended | Integrated analysis with ggpicrust2 including GSEA
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
ko2kegg_abundance | Convert KO abundance in picrust2 export files to KEGG pathway abundance
ko_abundance | KO Abundance Dataset
metacyc_abundance | MetaCyc Abundance Dataset
metadata | Metadata for ggpicrust2 Demonstration
pathway_annotation | Pathway information annotation of "EC", "KO", "MetaCyc" pathway
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_gsea | Gene Set Enrichment Analysis for PICRUSt2 output
pathway_heatmap | Create pathway heatmap
pathway_pca | Perform Principal Component Analysis (PCA) on functional pathway abundance data
safe_extract | Safely Extract Elements from a List
visualize_gsea | Visualize GSEA results