lineplot.CI: Line Plot with CI

In sciplot: Scientific Graphing Functions for Factorial Designs

Description

Lineplot of the mean and standard error (or other summary statistics) of a response variable for one-way or higher experimental designs.

Usage

lineplot.CI(x.factor, response, group=NULL, type="b", xlab=NULL, ylab=NULL,
    x.cont=FALSE, legend=TRUE, leg.lab=NULL, fixed=FALSE,
    x.leg=NULL, y.leg=NULL, cex.leg=1, ncol=1,
    pch=c(16, 21, 15, 22, 17, 24, c(3:14)), 
    fun = function(x) mean(x, na.rm=TRUE),
    ci.fun= function(x) c(fun(x)-se(x), fun(x)+se(x)),
    err.width = if(length(levels(as.factor(x.factor))) > 10) 0 else 0.1,
    err.col = col, err.lty = 1, 
    xlim=NULL, ylim=NULL, cex=NULL, lwd=NULL, col="black", cex.axis=1,
    xaxt="s", data=NULL, subset=NULL, ...)

Arguments

x.factor	a factor (required) whose levels will form the x axis.
response	a numeric variable giving the response.
group	grouping factor (optional) whose levels will form the traces.
type	the type of plot: lines, points, or both. Defaults to both.
xlab	default x-axis label. If not specified will parse name from x.factor. To leave blank set to NA
ylab	default y-axis label. If not specified will parse name from response. To leave blank set to NA
x.cont	logical. Treat x.factor as a continuous variable?
legend	logical. Should a legend be included?
leg.lab	legend labels for trace factors.
fixed	logical. Should the legend be in the order of the levels of 'trace.factor' or in the order of the traces at their right-hand ends?
x.leg, y.leg	optional values to over ride the default legend placement.
cex.leg	character expansion value for legend labels.
ncol	number of columns to use for legend.
pch	a vector of plotting symbols or characters.
fun	the function to compute the summary statistic. Should return a single real value. Defaults to mean with NA values removed.
ci.fun	the functions to compute the CI. Should return a vector of length 2 defining the lower and upper limits of the CI's. Defaults to the mean +/- 1 standard error, with NA values removed.
err.width	set width of whiskers for error bars.
err.col	color for error bars. Defaults to col.
err.lty	line type for error bars.
xlim, ylim	range for x and y axes.
cex	overall plot character expansion value.
lwd	deterimines line width.
col	default color(s) for plot.
cex.axis	character expansion value for axis labels.
xaxt	should x-axis be drawn?
data	an optional data frame.
subset	an optional expression indicating the subset of the rows of 'data' that should be used in the plot.
...	further graphical parameters.

Details

Plots a response as a function of treatment (factor) combinations for one-way and higher designs. This is a "wrapper" function for plot in one-way designs and interaction.plot in higher-way designs that adds confidence intervals - those functions should be consulted for details. Notable changes from the defaults for interaction.plot include the removal of NA values by default, options to specify a subset of data and greater flexibility in the placement of legends. This function replicates some of the functionality of plotmeans from the package gplots, with differences in the treatment of two-way and higher designs.

See Also

interaction.plot, se

Examples

data(ToothGrowth)

# One way design
lineplot.CI(x.factor = dose, response = len, data = ToothGrowth) 

# Two-way design with options
lineplot.CI(dose, len, group = supp, data = ToothGrowth, cex = 2,
            xlab = "Dose", ylab = "Growth", cex.lab = 1.5, x.leg = 1,
            col = c("blue","red"), pch = c(16,16))

Example output

sciplot documentation built on April 14, 2020, 7:37 p.m.