uplot_dbe_vs_o: Plot DBE vs Oxygen Atoms (cf. Herzsprung et al. 2014) with...

In ume: Ultrahigh-Resolution Mass Spectrometry Data Evaluation for Complex Organic Matter

Plot DBE vs Oxygen Atoms (cf. Herzsprung et al. 2014) with Option for Interactive Plot

Description

This function generates a scatter plot of Double Bond Equivalent (DBE) versus the number of oxygen atoms (o). It allows for optional customization of colors based on a specified variable (z_var) and offers the option to convert the plot to an interactive plotly object.

Usage

uplot_dbe_vs_o(
  df,
  z_var = "norm_int",
  palname = "redblue",
  col_bar = TRUE,
  tf = FALSE,
  logo = TRUE,
  cex.axis = 12,
  cex.lab = 15,
  plotly = FALSE,
  ...
)

Arguments

df	A data frame containing the data. The columns ⁠16O⁠ (number of oxygen atoms), dbe (DBE values), and the column specified in z_var should be present in the data.
z_var	Character. Column name for variable used for color-coding. Content of column should be numeric.
palname	Color palette name for f_colorz() (viridis, magma, plasma, etc.).
col_bar	Logical. If TRUE, adds a color legend (default is TRUE).
tf	Logical. If TRUE, applies a transformation to the color scale (default is FALSE).
logo	Logical. If TRUE, adds a UME caption.
cex.axis	Numeric. Size of axis text (default is 1).
cex.lab	Numeric. Size of axis labels (default is 1.4).
plotly	Logical. If TRUE, return interactive plotly object.
...	Arguments passed on to f_colorz z Numeric vector. Values whose colors should be computed. col_num Integer. Number of colors in the palette (default: 100). verbose logical; if TRUE, show progress messages.

Value

A ggplot object or a plotly object depending on the plotly argument.

ume documentation built on Dec. 13, 2025, 1:06 a.m.