plot.nmr2d.data.object: Plot 2D NMR data
In jmstrat/NMR.Utils: Importing and processing Bruker NMR data

Description Usage Arguments Value Examples

This function plots 2D NMR Data.

## S3 method for class 'nmr2d.data.object'
plot(nmrdata, xlim = NA, ylim = NA,
  plot_offset = "auto", axes = 1, xaxismline = -0.8,
  xaxislabelmline = 1.1, plot.colour = TRUE, plot.colour.ranges = NA,
  plot.colour.yranges = "auto", col_na = "black",
  colour_scheme = c("blue", "green", "yellow", "magenta", "red"),
  colour.legend = FALSE, colour.legend.show.zero = TRUE,
  damp_colour_scaling_percent = NA, col = "Black", lwd = par("lwd"),
  shade_under = FALSE, shade_col = "grey",
  shade_min_intensity = -Inf, y_trunc = NA, y_trunc_x_points = c(),
  y_trunc_amp_div = 200, y_trunc_label_offset_factor = 20,
  y_trunc_sin_period = 5, y_trunc_labels = c(),
  y_trunc_text_col = "grey", y_trunc_line_col = "grey",
  y_trunc_lwd = 2, y_trunc_cex = 1, show_ppm_label = TRUE,
  ticksOut = T, lowerTickLimit = NA, lowerLabelLimit = NA,
  upperTickLimit = NA, upperLabelLimit = NA, forcedInterval = NA,
  forcePrint = FALSE)

`nmrdata`	Data frame of (real) NMR data (ppm, intensity1, ...)
`xlim`	x range of data to plot (ppm) – should be in form c(upper, lower) or spectrum will be reversed (or 'auto')
`ylim`	Y range of data to plot (or 'auto')
`plot_offset`	offset between subsequent plots (or 'auto')
`xaxismline`	The margin line on which to draw the x-axis
`xaxislabelmline`	The margin line on which to draw the x-axis label
`plot.colour`	(TRUE / FALSE) Should the plot be coloured?
`plot.colour.ranges`	list of x ranges to colour (can be NA to cover entire range)
`col_na`	Colour of values outside of colouring y-range
`colour_scheme`	If plot.colour is TRUE, each colour y-range (as specified in plot.colour.ylims) will be split into a number of equal ranges based on the number of colours specified in this vector. Each range will be assigned to one of the colours, starting from the smallest y-value.
`colour.legend`	(TRUE / FALSE) Show a basic legend of the chosen colour_scheme
`colour.legend.show.zero`	(TRUE / FALSE) If the colour range extends beyond zero, indicate this value in the legend (WARNING: Only valid if there is a single colour scaling range)
`damp_colour_scaling_percent`	Apply a linear damping to the values used for colour scaling to this percent of the end of the range to help avoid a "hard" end (NA to disable)
`col`	Line colour for plot
`lwd`	Line width for plot
`shade_under`	TRUE / FALSE shade under the plot
`shade_col`	colour to shade plot
`shade_min_intensity`	Only shade under points with intensity greater than this
`y_trunc`	Truncate y values that are higher than this (or NA for auto)
`y_trunc_x_points`	X-ranges to draw truncation lines over
`y_trunc_amp_div`	Factor to divide amplitude of truncation line
`y_trunc_label_offset_factor`	Factor to offset truncation line label by
`y_trunc_sin_period`	Period of sine wave for truncation line
`y_trunc_labels`	List of labels for truncation line
`y_trunc_text_col`	Colour of text for truncation line
`y_trunc_line_col`	Colour of truncation line
`y_trunc_lwd`	Line width of truncation line
`y_trunc_cex`	cex of truncation label
`show_ppm_label`	(TRUE / FALSE) Should plot ppm axis label
`xTickInterval`	Tick interval for x axis (or 'auto')
`xMinorTickInterval`	Minor tick interval for x axis (or 'auto')
`plot.colour.ylims`	list of y ranges to scale colours over (can be 'auto')