save_taxonomy_graphics: Save taxonomy summary charts and tables to multi-page PDF

In ClassifyITS: Fungal Assignment Pipeline

Save taxonomy summary charts and tables to multi-page PDF

Description

Save taxonomy summary charts and tables to multi-page PDF

Usage

save_taxonomy_graphics(
  all_results,
  hist_plot,
  pdf_file = NULL,
  caption_texts = NULL,
  rank_names = c("Phylum", "Class", "Order", "Family", "Genus", "Species"),
  verbose = FALSE
)

Arguments

all_results	Combined assignments table from write_initial_assignments
hist_plot	ggplot2 object for histogram
pdf_file	Output path for multi-page PDF. If NULL (default), no file is written.
caption_texts	Vector of captions for PDF pages (optional)
rank_names	Vector of rank names (default: c("Phylum",...))
verbose	Logical; if TRUE, emit a message when a PDF is written. Default FALSE.

Value

List with plots/tables; includes pdf_file when written.

ClassifyITS documentation built on April 9, 2026, 5:08 p.m.