plot_heat: Heatmaps for Taxonomic Group of Interest
In escamero/mirlyn: Multiple Iterations of Rarefying for Library Normalization

plot_heat

R Documentation

Heatmaps for Taxonomic Group of Interest

Description

The plot_heat() function will create heatmaps visualizing the relative abundance of a taxonomic group of interest from a data.frame.

Usage

plot_heat(x, taxlevel, taxaname, xvar, yvar, fillvar)

Arguments

`x`	is a `data.frame` from `phyloseq_to_df()`.
`taxlevel`	is the taxonomic level of the taxa you're interested in. By default, it will look at the phylum level.
`taxaname`	is the taxonomic name of interest.
`xvar`	is a categorical variable selected from the metadata.
`yvar`	is a secondary categorical variable selected from the metadata.
`fillvar`	is the column name of the abundance.

Value

A ggplot object.

Examples

library(mirlyn)
library(dplyr)
data(example)

example_df <- phyloseq_to_df(example)
example_df_phylum <- example_df %>%
    group_by(sample, Id, Phylum) %>%
    summarise(abundance = sum(abundance))%>%
    mutate(Proportion = abundance/sum(abundance)*100)
plot_heat(example_df_phylum, taxlevel = "Phylum",taxaname = "Cyanobacteria",
    xvar = "sample", yvar = "Id", fillvar = "Proportion")

escamero/mirlyn documentation built on Aug. 6, 2023, 9:30 p.m.