Plot one ranked adduct-conflict seed-chain demo — plot_compare_pave_adduct_conflict

Starts from a PAVE adduct feature and walks upstream along cn.seed.ig adduct-parent edges to the metabolite root (not the TRACE seed field, which often skips intermediate adducts). Each edge is labelled M-H > M+XXX from the child pave_adduct/description.

Usage

plot_compare_pave_adduct_conflict_demo(
  object,
  assignment = NULL,
  index = 1L,
  demos = NULL,
  pave.trace.merged.lib = NULL,
  i.pol = 0,
  lib_fill = "#4DBBD5",
  other_fill = "grey92",
  return.data = FALSE
)

Arguments

object: MSdev object used to build demos.
assignment: Assignment table/path passed to [compare_pave_adduct_conflict_demos()], unless demos is supplied.
index: 1-based index into ranked demos.
demos: Optional precomputed list from [compare_pave_adduct_conflict_demos()].
pave.trace.merged.lib: Optional merged library table.
i.pol: Polarity index (0 = negative).
lib_fill: Fill color for TRACE library-hit nodes.
other_fill: Fill color for other nodes.
return.data: If TRUE, return list with plot, demo, and layout tables.

Value

A ggplot object, or a list when return.data = TRUE.