plot_taxa_boxplot.Rd
Plot taxon abundance for samples.
plot_taxa_boxplot(x, taxonomic.level, top.otu, VariableA, title, color = NULL)
x |
|
---|---|
taxonomic.level | Merge the OTUs (for phyloseq object) into a higher taxonomic level. This has to be one from colnames(tax_table(x)). |
top.otu | Top number of taxa to plot. |
VariableA | Specify main variable of interest. This should be one of the variables in sample_variables(x). |
title | title for the plot |
color | any of the palette supported by ggpubr/RColorBrewer packages or user specified as c("red", "blue"). |
A ggplot
plot object.
# NOT RUN { # Example data library(microbiomeutilities) library(RColorBrewer) data("zackular2014") ps1 <- zackular2014 pn <- plot_taxa_boxplot(ps1, taxonomic.level = "Phylum", top.otu = 3, VariableA = "DiseaseState", title = "Rel plot", color = "Set2") print(pn) # }