generate_ggplot: Generate a ggplot of the MetAnnotate data

In MetAnnotate/metannoviz: Process and visualize output from the MetAnnotate pipeline

Description

Generates the ggplot of MetAnnotate data

Usage

generate_ggplot(
  metannotate_data,
  hit_totals,
  plotting_colour_data,
  plotting_taxon,
  normalizing_HMM,
  plot_type = "bar",
  space = "free",
  bubble_size_range = c(1, 20),
  alpha = 0.8,
  bubble_labels = TRUE
)

Arguments

metannotate_data	Tibble of normalized metannotate data - see normalize and combine_replicates
hit_totals	Tibble of total normalized hits per HMM/sample; this is generated in normalize and combine_replicates
plotting_colour_data	Tibble of plot colours generated by process_plotting_colours
plotting_taxon	The taxonomy rank to summarize bars/bubbles to; MUST MATCH the collapse taxon of the MetAnnotate table
normalizing_HMM	the name of the normalizing HMM (e.g., 'rpoB')
plot_type	Either 'bar' or 'bubble'
space	ggplot setting; 'fixed' or 'free'
bubble_size_range	numeric vector of length two with the small and large bubble sizes
alpha	ggplot value; transparency (for bubble plots)
bubble_labels	logical; show percent labels on the bubbles for bubble plots?

Value

A ggplot of MetAnnotate data

MetAnnotate/metannoviz documentation built on Aug. 2, 2020, 3:12 p.m.