Plot frequency of duplicates per mode for each species

Plot frequency of duplicates per mode for each species

Usage

plot_duplicate_freqs(dup_counts, plot_type = "facet", remove_zero = TRUE)

Arguments

dup_counts

A data frame in long format with the number of duplicates per mode for each species, as returned by the function duplicates2counts.

plot_type

Character indicating how to plot frequencies. One of 'facet' (facets for each level of the variable type), 'stack' (levels of the variable type as stacked bars), or 'stack_percent' (levels of the variable type as stacked bars, with x-axis representing relative frequencies). Default: 'facet'.

remove_zero

Logical indicating whether or not to remove rows with zero values. Default: TRUE.

Value

A ggplot object.

Examples

data(fungi_kaks)

# Get unique duplicates
duplicate_list <- classify_genes(fungi_kaks)

# Get count table
dup_counts <- duplicates2counts(duplicate_list)

# Plot counts
plot_duplicate_freqs(dup_counts, plot_type = "stack_percent")