Function reference • microbiomeutilities

All functions
`add_refseq()`	Add refseq slot for dada2 based phyloseq object
`aggregate_top_taxa2()`	Aggregate Top Taxa v2
`dominant_taxa()`	Dominant Taxa
`find_samples_taxa()`	Find samples dominated by specific taxa
`format_to_besthit()`	Formatting the `phyloseq-class` Object advanced
`get_group_abundances()`	Taxa abundance summary by group
`get_microbiome_data()`	Download test microbiome data
`get_tibble()`	Convert Phyloseq Slots to Tibbles
`hmp2`	Test data 2
`join_otu_tax()`	Join otu_table and tax_table to Tibble
`list_microbiome_data()`	List of available datasets
`make_pairs()`	Make pairs
`peak_abundance()` `peak_taxonomy()` `peak_sample()` `peak_base()`	Peak into `phyloseq` objects
`percent_classified()`	Summarize the percent taxa classification for `phyloseq-class`
`phy_to_ldf()`	Convert `phyloseq-class` object to long data format
`plasticity()`	Plasticity
`plot_abund_prev()`	Mean Abundance-Prevalence relation
`plot_alpha_diversities()`	Creat a plot for alpha diversities calculated using the `microbiome` package
`plot_alpha_rcurve()`	Rarefaction curves for alpha diversity indices
`plot_area()`	Area plot
`plot_diversity_stats()`	Diversity plot with stats
`plot_listed_taxa()`	A boxplot for user specified list of taxa
`plot_ordination_utils()`	Plot species loading with ordinations
`plot_ordiplot_core()`	Plotting core microbiota on ordinations
`plot_paired_abundances()`	A paired-boxplot for user specified list of taxa
`plot_read_distribution()`	Distribution of reads
`plot_select_taxa()`	A boxplot for user specified list of taxa
`plot_spaghetti()`	Spaghetti Plots
`plot_taxa_boxplot()`	Taxonomic Composition Plot boxplot
`plot_taxa_composition()`	Taxonomic Composition Plot
`plot_taxa_cv()`	Coefficient of variations
`plot_taxa_heatmap()`	Heatmap using `phyloseq-class` and `pheatmap`
`prep_ternary()`	Create table for Ternary plot
`prep_tern_otu()`	Create table for ternary plot OTU
`print_ps()`	Overview of `phyloseq-class`
`simple_heatmap()`	Simple Heatmap
`taxa_distribution()`	Distribution of taxa
`taxa_pooler_mcola()`	Pool Taxa
`taxa_summary()`	Give taxa summary at specified taxonomic level
`theme_biome_utils()`	Custom theme for microbiomeutilities pkg
`zackular2014`	Test data

Reference

All functions