plot.she: Custom plot function for SHE Analysis objects

In forams: Foraminifera and Community Ecology Analyses

Custom plot function for SHE Analysis objects

Description

This function generates customizable graphics for objects of the class she.

Usage

## S4 method for signature 'she'
plot(x, pch = 20, pcol = 'black', pcex = 1, pbg = 'black', lcol = 'black',
  lwd = 1, lty = 'dotted', ylab = expression('ln'~italic(E)), bty = 'l', ...)

Arguments

x	an object of class she.
pch	plotting 'character', i.e., symbol to use with the points, defaults to 20.
pcol	color code or name for plot symbols, defaults to "black".
pcex	character (or symbol) expansion: a numerical vector, defaults to 1.
pbg	background (fill) color for the open plot symbols given by pch=21:25, defaults to "black"
lcol	a specification for the default plotting color of the line, defaults to "black".
lwd	the line width, a positive number, defaulting to 1.
lty	the line type. Line types can either be specified as an integer (0=blank, 1=solid (default), 2=dashed, 3=dotted, 4=dotdash, 5=longdash, 6=twodash) or as one of the character strings "blank", "solid", "dashed", "dotted", "dotdash", "longdash", or "twodash", where "blank" uses 'invisible lines' (i.e., does not draw them).
ylab	a label for the y axis, defaults to expression("ln" ~ italic(E)).
bty	box type drawn about the plot, defaults to "l". Other types will not reproduce ideally.
...	other parameters to be passed to plot.default.

Details

The plot produces a line plot with points on a ln abscissa and uses the axis function, so a complete customization (i.e. side) of the axes is not possible at this moment.

Note

For more details on other graphic prameters see par.

Author(s)

Rodrigo Aluizio

References

Buzas, M.A. & Hayek, L.A.C. (1998). SHE analysis for biofacies identification. Journal of Foraminiferal Research 28 (3), 233-239.

Wilson, B., Dawe, R., Gopee, A., Grant, S., Kissoon, A., Young, T., Noon, C., McLean, A. & Singh, K. (2010). Determining Boundaries between Abundance Biozones Using Minimal Equipment. International Journal of Ecology 2010, 1-14.

Examples

data(LF)
MySHE <- she(LF, "abun")
plot(MySHE)

forams documentation built on Aug. 24, 2023, 5:11 p.m.