Plot per-tRNA modification landscape profiles. — plot_mod

Create a stacked panel plot showing multiple metrics along the tRNA sequence. Each metric gets its own panel sharing a common x-axis. Optionally adds structural region background shading and a secondary x-axis with Sprinzl position labels.

Usage

plot_mod_landscape(
  data,
  metrics,
  pos_col = "pos",
  region_col = NULL,
  sprinzl_col = NULL,
  mod_col = NULL,
  title = NULL,
  heights = NULL
)

Arguments

data: A data frame with a position column and one or more metric columns to plot.
metrics: Character vector of column names to plot as stacked panels (one panel per metric).
pos_col: Column name (string) for x-axis positions. Default "pos".
region_col: Optional column name (string) for structural region labels, used for background shading. Default NULL.
sprinzl_col: Optional column name (string) for Sprinzl position labels shown on a secondary x-axis. Default NULL.
mod_col: Optional column name (string) of a logical column; TRUE positions are highlighted on the Sprinzl axis (requires ggtext). Default NULL.
title: Plot title. Default NULL.
heights: Numeric vector of relative panel heights. Default NULL (equal heights).

Value

A patchwork object combining stacked ggplot panels.

Examples

df <- data.frame(
  pos = rep(1:20, 2),
  condition = rep(c("ctl", "mut"), each = 20),
  error_rate = runif(40, 0, 0.3),
  signal = rnorm(40, sd = 0.1)
)
plot_mod_landscape(df, metrics = c("error_rate", "signal"))