longiPlot: Plots longitudinal data from a Lemna Tec Scananalyzer
In imageData: Aids in Processing and Plotting Data from a Lemna-Tec Scananalyzer

longiPlot

R Documentation

Plots longitudinal data from a Lemna Tec Scananalyzer

Description

Produce profile or longitudinal plots of the data from a Lemna Tec Scananalyzer using ggplot. A line is drawn for the data for each Snapshot.ID.Tag and the plot can be facetted so that a grid of plots is produced.

Usage

longiPlot(data, x = "xDays+44.5", response = "Area", individuals="Snapshot.ID.Tag", 
          x.title = "Days", y.title = "Area (1000 pixels)", title = NULL, 
          facet.x = "Treatment.1", facet.y =   "Smarthouse", labeller = NULL, 
          colour = "black", colour.column=NULL, colour.values=NULL, 
          alpha = 0.1, ggplotFuncs = NULL, printPlot = TRUE)

Arguments

`data`	A `data.frame` containing the data to be plotted.
`x`	A `character` giving the variable to be plotted on the x-axis.
`response`	A `character` specifying the response variable that is to be plotted on the y-axis.
`individuals`	A `character` giving the name(s) of the `factor`(s) that define the subsets of the `data` for which each subset corresponds to the `response` values for an individual.
`x.title`	Title for the x-axis.
`y.title`	Title for the y-axis.
`title`	Title for the plot.
`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.
`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.
`labeller`	A `ggplot` `function` for labelling the facets of a plot produced using the `ggplot` function. For more information see `ggplot`.
`colour`	A `character` specifying a single colour to use in drawing the lines for the profiles. If colouring according to the values of a variable is required then use `colour.column`.
`colour.column`	A `character` giving the name of a column in `data` over whose values the colours of the lines are to be varied. The colours can be specified using `colour.values` .
`colour.values`	A `character` vector specifying the values of the colours to use in drawing the lines for the profiles. If this is a named vector, then the values will be matched based on the names. If unnamed, values will be matched in order (usually alphabetical) with the limits of the scale.
`alpha`	A `numeric` specifying the degrees of transparency to be used in plotting. It is a ratio in which the denominator specifies the number of points (or line) that must be overplotted to give a solid cover.
`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.
`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

Examples

data(exampleData)
longiPlot(data = longi.dat, response = "Area.smooth")

plt <- longiPlot(data = longi.dat, response = "Area.smooth", x.title = "DAP",  
                 y.title = "Area.smooth", x="xDays+35.42857143", printPlot=FALSE)
plt <- plt + ggplot2::geom_vline(xintercept=29, linetype="longdash", size=1) +
             ggplot2::scale_x_continuous(breaks=seq(28, 42, by=2)) + 
             ggplot2::scale_y_continuous(limits=c(0,750))
print(plt)

longiPlot(data = longi.dat, response = "Area.smooth", x.title = "DAP",  
          y.title = "Area.smooth", x="xDays+35.42857143", 
          ggplotFuncs = list(ggplot2::geom_vline(xintercept=29, linetype="longdash", 
                                                 size=1), 
                             ggplot2::scale_x_continuous(breaks=seq(28, 42, by=2)), 
                             ggplot2::scale_y_continuous(limits=c(0,750))))

imageData documentation built on Aug. 22, 2023, 5:08 p.m.