plotDeviationsBoxes: Produces boxplots of the deviations of the observed values...

In growthPheno: Functional Analysis of Phenotypic Growth Data to Smooth and Extract Traits

Produces boxplots of the deviations of the observed values from the smoothed values over values of x.

Description

Produces boxplots of the deviations of the observed values from the smoothed values over values of x.

Usage

plotDeviationsBoxes(data, observed, smoothed, x.factor, 
                    x.title = NULL, y.titles = NULL,
                    facet.x = ".", facet.y = ".", 
                    facet.labeller = NULL, 
                    facet.scales = "fixed", 
                    angle.x = 0, 
                    deviations.plots = "absolute", 
                    ggplotFuncs = NULL, printPlot = TRUE, ...)
 

Arguments

data	A data.frame containing the observed and smoothed values from which the deviations are to be computed.
observed	A character specifying the response variable for which the observed values are supplied.
smoothed	A character specifying the smoothed response variable, corresponding to observed, for which values are supplied.
x.factor	A character giving the factor to be plotted on the x-axis.
x.title	Title for the x-axis. If NULL then set to x.
y.titles	A character giving the titles for the y-axis, one for each plot specified deviations.plots.
facet.x	A data.frame giving the variable to be used to form subsets to be plotted in separate columns of plots. Use "." if a split into columns is not wanted. For which.plots set to methodcompare or dfcompare facet.x.pf is ignored.
facet.y	A data.frame giving the variable to be used to form subsets to be plotted in separate rows of plots. Use "." if a split into columns is not wanted.
facet.labeller	A ggplot function for labelling the facets of a plot produced using the ggplot function. For more information see ggplot.
facet.scales	A character specifying whether the scales are shared across all facets of a plot ("fixed"), or do they vary across rows (the default, "free_x"), columns ("free_y"), or both rows and columns ("free")?
angle.x	A numeric between 0 and 360 that gives the angle of the x-axis text to the x-axis. It can also be set by supplying, in ggplotFuncs, a theme function from ggplot2.
deviations.plots	A character specifying whether absolute and/or relative deviations are to be plotted.
ggplotFuncs	A list, each element of which contains the results of evaluating a ggplot function. It is created by calling the list function with a ggplot function call for each element. These functions are applied in creating the ggplot object for plotting.
printPlot	A logical indicating whether or not to print the plots.
...	allows passing of arguments to ggplot.

Value

A list whose components are named absolute and relative; a component will contain an object of class "ggplot" when the plot has been requested using the deviations.plots argument and a NULL otherwise. The objects can be plotted using print.

Author(s)

Chris Brien

See Also

plotMedianDeviations, probeSmoothing, ggplot.

Examples

data(exampleData)

plotDeviationsBoxes(longi.dat, observed = "PSA", smoothed = "sPSA",
                    x.factor="DAP", facet.x.pf = ".", facet.y= ".", df =5)

growthPheno documentation built on Sept. 11, 2024, 6:42 p.m.