Generate a Venn diagram of taxa shared between sample groups

This function creates a Venn diagram using either the ggVennDiagram or ggenn package based on the user's preference. It includes additional customization options like minimum prevalence filtering and custom group color scales (manual).

venn_diagram_plot(
  table,
  metadata,
  merge_by = NULL,
  selected_samples = NULL,
  min_prevalence = 0,
  title = NULL,
  method = "ggvenn",
  group_colors = NULL
)

Arguments

table: A data frame containing taxonomic abundance data with a column named taxonomy and subsequent columns as sample IDs.
metadata: A data frame containing metadata with a column named SAMPLEID that matches the sample columns in table.
merge_by: A character string specifying the metadata column by which to group and merge samples. Default is Tratamiento.
selected_samples: Optional character vector specifying a subset of sample IDs to include in the analysis.
min_prevalence: Optional numeric value (0-1) to filter taxa based on minimum prevalence across groups.
title: Optional character string for the title of the plot.
method: Character string: ggVennDiagram (default) or ggvenn, specifying the package to use for Venn diagram generation.
group_colors: Optional vector of colors for the groups. If NULL, a default distiller scale with Set3 palette will be used.

Value

A ggplot object or other plot depending on the method.

Examples

   venn_diagram_plot(table= table_taxa,
                                metadata=metadata,
                                merge_by = "ID.CAM",
                                min_prevalence = 0,
                                denom = "all",
                                group_colors = c("blue", "yellow"),
                                method = "ggvenn")
#> Error in venn_diagram_plot(table = table_taxa, metadata = metadata, merge_by = "ID.CAM",     min_prevalence = 0, denom = "all", group_colors = c("blue",         "yellow"), method = "ggvenn"): unused argument (denom = "all")