plotImagetimes: Plots the position of a time within an interval against the...

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

Plots the position of a time within an interval against the interval for each cart

Description

Uses ggplot to produce a plot of the time position within an interval against the interval. For example, one might plot the hour of the day carts are imaged against the days after planting (or some other number of days after an event). A line is produced for each value of groupVariable and the colour is varied according to the value of the colourVariable. Each Smarthouse is plotted separately. It aids in checking whether delays occurred in imaging the plants.

Usage

plotImagetimes(data, intervals = "Time.after.Planting..d.", timePositions = "Hour", 
               groupVariable = "Snapshot.ID.Tag", colourVariable = "Lane", 
               ggplotFuncs = NULL, printPlot = TRUE)

Arguments

data	A data.frame containing any columns specified by intervals, timePositions, groupVariable and colourVariable.
intervals	A character giving the name of the column in data containing, as a numeric or a factor, the calculated times to be plotted on the x-axis. For example, it could be the days after planting or treatment.
timePositions	A character giving the name of the column in data containing, as a numeric, the value of the time position within an interval (for example, the time of imaging during the day expressed in hours plus a fraction of an hour).
groupVariable	A character giving the name of the column in data containing the variable to be used to group the plotting.
colourVariable	A character giving the name of the column in data containing the variable to be used to colour the plotting.
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.
printPlot	A logical indicating whether or not to print the plot.

Value

An object of class "ggplot", which can be plotted using print.

Author(s)

Chris Brien

See Also

ggplot, calcTimes.

Examples

data(exampleData)
library(ggplot2)
longi.dat <- calcTimes(longi.dat, imageTimes = "Snapshot.Time.Stamp",
                       timePositions = "Hour")
plotImagetimes(data = longi.dat, intervals = "DAP", timePositions = "Hour",
               ggplotFuncs=list(scale_colour_gradient(low="grey20", high="black"), 
                                geom_line(aes(group=Snapshot.ID.Tag, colour=Lane))))

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