plot_report function

Plot the reporter_res

plot_report(
  reporter_res,
  rs_threshold = 1.64,
  mode = 1,
  y_text_size = 13,
  str_width = 100,
  show_ID = FALSE,
  Pathway_description = TRUE,
  facet_level = FALSE,
  facet_anno = NULL,
  facet_str_width = 15,
  plot_line = TRUE,
  reorder = FALSE
)

Arguments

• reporter_res: result of get_reporter_score or reporter_score
• rs_threshold: plot threshold vector, default:1.64
• mode: 1~3 plot style.
• y_text_size: y_text_size
• str_width: str_width to wrap
• show_ID: show pathway id
• Pathway_description: show KO description rather than KO id.
• facet_level: facet plot if the type is "pathway" or "module"
• facet_anno: annotation table for facet, two columns, first is level summary, second is pathway id.
• facet_str_width: str width for facet label
• plot_line: plot line or not
• reorder: reorder the order of the pathways

Returns

ggplot

Examples

data("reporter_score_res")
plot_report(reporter_score_res, rs_threshold = c(2.5, -2.5), y_text_size = 10, str_width = 40)