plotScatterViz: Scater Plot

In RIVM-IIV-Microbiome/biomeViz: Data visualization for microbiome analytics

Scater Plot

Description

Scater Plot

Arguments

x	phyloseq-class object.
x_numeric	A column in sample_data to compare that is a numeric
y_numeric	A column in sample_data to compare that is a numeric
color_var	A column in sample_data to color points
point_size	geom_point. Default is 3
point_opacity	ggplot2 alpha value. Default is 0.5
point_shape	ggplot2 point shape value. Default is 21
side_panel	Logical. If side density to plot. Default is TRUE
side_panel_scale	ggside ggside.panel.scale requires a scalar numeric. default is 0.3

Details

A simple plotting utility for visualization of two numerical variables. Provided two numerical variable present in sample_data of a phyloseq-class object, a scatter plot is returned.

Value

a ggplot object.

Author(s)

Sudarshan A. Shetty

References

Shetty SA (2021). Data visualization for microbiome analytics. https://github.com/microsud/biomeViz

Examples

library(biomeUtils)
library(biomeViz)
library(dplyr)
library(microbiome)
library(ggplot2)
ps <- FuentesIliGutData
plotScatterViz(ps, x_numeric = "age", y_numeric = "BMI",
               color_var = "ILI") +
               scale_fill_manual(values=c("steelblue", "brown3", "grey70"))+
               scale_fill_manual(values=c("steelblue", "brown3", "grey70"))

RIVM-IIV-Microbiome/biomeViz documentation built on July 20, 2022, 3:52 a.m.