Alpha_diversity_calculator
                        Calculate alpha diversity based on tax summary
                        object
Alpha_diversity_calculator2
                        Calculate alpha diversity based on tax summary
                        object or dataframe table
Deseq_analysis          Deseq Analysis Function
Deseq_analysis2         Deseq analysis
Dimension_reduction     Dimension_reduction: PCA, PCOA, and NMDS
                        Analysis
Facet_group             Tax summary object with Facet 2x2 Groups
Filter_function         Filter OTU/ASV/metagenomic profile/gene profile
                        by threshold
LorMe                   LorMe package: Lightening One-Code Resolving
                        Microbial Ecology Program
Module_abundance        Calculate network module abundance for each
                        sample
Module_composition      Pie chart for network module composition
NC_remove               Natural connectivity analysis
Three_group             Tax summary object with three groups
Top_taxa                Calculate top taxa and others
Two_group               Tax summary object with two groups
anova_report            Print Analysis of Variance report
auto_signif_test        Automatic significance test
circulation_lm          Circulation of fitting Linear Models
color_scheme            Get color scheme
combine_and_translate   Combine data for visualization
community_plot          Generate Community Composition Plot Based on
                        Tax_summary Object
compare_plot            Comparison plot generator This function help
                        generate comparsion plot including bar plot,
                        box plot, and violin plot
differential_bar        Generate Differential Bar Plot and Error bar
                        Plot
indicator_analysis      Indicator Analysis
kruskal_report          Print Kruskal-Wallis Rank Sum Test report
manhattan               Manhattan Plot Generator
nc                      Calculate Network Natural Connectivity
network_analysis        Conduct Network analysis based on tax summary
                        object
network_analysis2       Conduct Network analysis
network_stat            Igraph network statistics
network_visual          Network Visualization
network_visual_re       Re-visualize network plot from 'network_visual'
                        or 'network_withdiff'
network_withdiff        Network Analysis with Differential Species
object_config           Set taxonomy summary configuration
structure_plot          Visualize microbial community composition
                        structure based on tax summary object
sub_tax_summary         Subsetting tax summary objects
t_test_report           Print Student's t-Test report
tax_summary             Encapsulate meta file, feature tables and
                        taxonomy annotation into tax summary object
tbRDA_analysis          tbRDA analysis
testotu                 test otudata
theme_zg                A classic theme for ggplot
volcano_plot            Generate Volcano plot base on Deseq_analysis or
                        indicator_analysis results
wilcox_test_report      Print Wilcoxon Rank Sum and Signed Rank Tests
                        reprot
