numeric; the percent of total intensity range with which to displace each spectrum. This is used to create stacked 1D spectra and is not passed to 2D plots.

numeric; the vertical position of 1D plots within the spectral window.

function; a function used to create a 1D projection, must be capable of being applied to a vector (e.g. min, max, sd). Function must accept x as its only argument.

integer 1 or 2; if 1 a projection of the direct dimension is displayed, 2 displays the indirect dimension.

logical; if TRUE displays a 1D representation of a 2D spectrum.

specifies the type of projection to be generated; "auto" displays a solid line, "p" displays only points, and "b" displays points connected by a line.

logical; if TRUE markers and labels are displayed over picked peaks.

integer; peak picking filter. 0 does not apply a noise filter, 1 applies a mild filter (adjacent points in the direct dimension must be above the noise threshold), and 2 applies a strong filter (all adjacent points must be above the noise threshold).

numeric; the peak picking threshold for 1D spectra.

integer or character; the symbol used for peak markers for picked peaks. Equivalent to R's pch graphical parameter, accepts any ASCII character as well as integer values corresponding to predefined symbols in R (see par).

numeric (positive); the magnification for peak labels and markers for picked peaks. Equivalent to R's cex graphical parameter (see par).

justification for peak label text. Must be one of "top", "bottom", "left", "right", or "center".

logical; if TRUE displays ROIs in the main plot window.

logical; if TRUE displays a marker in the subplot and multiple file windows on the absolute maximum visible signals within the ROIs.

color setting for active and inactive ROI boxes. Must be a vector of length two: c(active, inactive). See colors for a list of usable colors.

color setting for active and inactive ROI labels. Must be a vector of length two: c(active, inactive). See colors for a list of usable colors.

numeric; line width for ROI boxes. Equivalent to R's lwd graphical parameter (see par).

box type for active and inactive ROIs. Must be a vector of length 2, c(active, inactive). Equivalent to R's lty graphical parameter (see par). Valid options include: "solid", "dashed", "dotted", "dotdash", "longdash", "twodash", or "blank".

numeric (positive); text magnification for ROI labels. Equivalent to R's cex graphical parameter (see par).

justification for ROI label text. Must be one of "top", "bottom", "left", "right", or "center".

integer; filter for automatic ROI generation (see ra). 0 does not apply a noise filter, 1 applies a mild filter (adjacent points in the direct dimension must be above the noise threshold), and 2 applies a strong filter (all adjacent points must be above the noise threshold). Note that setting the ROI noise filter to zero may result in errors when using ra in certain spectra.

numeric; fixed size in the indirect dimension (in ppm) for ROIs generated automatically using ra.

numeric; fixed size in the direct dimension (in ppm) for ROIs generated automatically using ra.

numeric; padding percentage applied to ROIs generated automatically using ra. This padding is added to the area surrounding the peaks within an ROI and is only applied to the height/width of an ROI if the corresponding roi.w1/roi.w2 argument is not provided.

numeric (positive); the magnification for ROI labels in the multiple file window (see rvm). Equivalent to R's cex graphical parameter (see par).

numeric (positive); the magnification for file names in the multiple file window (see rvm). Equivalent to R's cex graphical parameter (see par).

numeric (positive); the magnification for ROI labels in the subplot window (see rvs). Equivalent to R's cex graphical parameter (see par).

numeric; the dimensions (in inches) for the main plot window, of the form c(width, height).

numeric; the dimensions (in inches) for the subplot window, of the form c(width, height).

numeric; the dimensions (in inches) for the multiple file window, of the form c(width, height).

numeric; the number of lines of margin space to be used in the main plot window. See par.

numeric; the number of lines of margin space to be used in the subplot window (in between ROI plots). Equivalent to R's mar graphical parameter (see par).

numeric; the number of lines of margin space to be used in the multiple file window (in between ROI plots). Equivalent to R's mar graphical parameter (see par).