het.hist: Plot Histogram of Contact Rates

In ICI3D/ici3d-pkg: Materials for the International Clinics on Infectious Disease Dynamics and Data (ICI3D) Workshops

Plot Histogram of Contact Rates

Description

Plot a histogram of contact rates, with annotations for population and sample means.

Usage

het.hist(mxdst, beta.mean, binwidth = 0.1, ...)

Arguments

mxdst	A numeric vector of contact rates, as produced by het.population().
beta.mean	The mean contact rate, as passed to het.population().
binwidth	The width of the bins. Can be specified as a numeric value or as a function that calculates width from unscaled x. Here, "unscaled x" refers to the original x values in the data, before application of any scale transformation. When specifying a function along with a grouping structure, the function will be called once per group. The default is to use the number of bins in bins, covering the range of the data. You should always override this value, exploring multiple widths to find the best to illustrate the stories in your data. The bin width of a date variable is the number of days in each time; the bin width of a time variable is the number of seconds.
...	Arguments passed on to ggplot2::geom_histogram mapping Set of aesthetic mappings created by aes(). If specified and inherit.aes = TRUE (the default), it is combined with the default mapping at the top level of the plot. You must supply mapping if there is no plot mapping. data The data to be displayed in this layer. There are three options: If NULL, the default, the data is inherited from the plot data as specified in the call to ggplot(). A data.frame, or other object, will override the plot data. All objects will be fortified to produce a data frame. See fortify() for which variables will be created. A function will be called with a single argument, the plot data. The return value must be a data.frame, and will be used as the layer data. A function can be created from a formula (e.g. ~ head(.x, 10)). position A position adjustment to use on the data for this layer. This can be used in various ways, including to prevent overplotting and improving the display. The position argument accepts the following: The result of calling a position function, such as position_jitter(). This method allows for passing extra arguments to the position. A string naming the position adjustment. To give the position as a string, strip the function name of the position_ prefix. For example, to use position_jitter(), give the position as "jitter". For more information and other ways to specify the position, see the layer position documentation. na.rm If FALSE, the default, missing values are removed with a warning. If TRUE, missing values are silently removed. show.legend logical. Should this layer be included in the legends? NA, the default, includes if any aesthetics are mapped. FALSE never includes, and TRUE always includes. It can also be a named logical vector to finely select the aesthetics to display. inherit.aes If FALSE, overrides the default aesthetics, rather than combining with them. This is most useful for helper functions that define both data and aesthetics and shouldn't inherit behaviour from the default plot specification, e.g. borders(). bins Number of bins. Overridden by binwidth. Defaults to 30. orientation The orientation of the layer. The default (NA) automatically determines the orientation from the aesthetic mapping. In the rare event that this fails it can be given explicitly by setting orientation to either "x" or "y". See the Orientation section for more detail.

Value

A ggplot object

See Also

Other heterogeneity: het.population(), het.run(), sample_pair(), sample_until()

ICI3D/ici3d-pkg documentation built on July 2, 2024, 12:35 p.m.