tfr.trajectories.plot {bayesTFR}R Documentation

Output of Posterior Distribution of TFR Trajectories

Description

The functions plot/tabulate the posterior distribution of TFR trajectories for a given country, or for all countries, including their median and given probability intervals.

Usage

tfr.trajectories.plot(tfr.pred, country, pi = c(80, 95), 
    half.child.variant = TRUE, nr.traj = NULL, 
    adjusted.only = TRUE, typical.trajectory = FALSE, 
    mark.estimation.points = FALSE,
    xlim = NULL, ylim = NULL, type = 'b', xlab = 'Year', ylab = 'TFR', 
    main = NULL, lwd = c(2, 2, 2, 2, 2, 1), 
    col=c('black', 'green', 'red', 'red', 'blue', '#00000020'),
    show.legend = TRUE, add = FALSE, uncertainty = FALSE, 
    thin = NULL, burnin = NULL, col_unc = "purple", ...)
	
tfr.trajectories.plot.all(tfr.pred, 
    output.dir = file.path(getwd(), 'TFRtrajectories'),
    output.type = "png", main = NULL, verbose = FALSE, ...)
	
tfr.trajectories.table(tfr.pred, country, pi = c(80, 95), 
    half.child.variant = TRUE)

Arguments

tfr.pred

Object of class bayesTFR.prediction.

country

Name or numerical code of a country.

pi

Probability interval. It can be a single number or an array.

half.child.variant

If TRUE the United Nations variant of “+/-0.5 child” (relative to the median) is shown.

nr.traj

Number of trajectories to be plotted. If NULL, all trajectories are plotted, otherwise they are thinned evenly.

adjusted.only

Logical. By default, if the projection median is adjusted using e.g. tfr.median.set, the function plots the adjusted median. If adjusted.only=FALSE the original (non-adjusted) median is plotted as well.

typical.trajectory

Logical. If TRUE one trajectory is shown that has the smallest distance to the median.

mark.estimation.points

Logical. If TRUE, points that were not used in the estimation (phase I) are shown in lighter color than points in phase II and III.

xlim, ylim, type, xlab, ylab

Graphical parameters passed to the plot function.

lwd, col

Vector of six elements giving the line width and color for: 1. observed data, 2. imputed missing data, 3. median, 4. quantiles, 5. half-child variant, 6. trajectories.

show.legend

Logical controlling whether the legend should be drawn.

add

Logical controlling whether the trajectories should be plotted into a new graphic device (FALSE) or into an existing device (TRUE). One can use this argument to plot trajectories from multiple countries into one graphics.

...

Additional graphical parameters. In addition, for tfr.trajectories.plot.all, ... contains any of the arguments of tfr.trajectories.plot.

output.dir

Directory into which resulting graphs are stored.

output.type

Type of the resulting files. It can be “png”, “pdf”, “jpeg”, “bmp”, “tiff”, or “postscript”.

main

Main title for the plot(s). In tfr.trajectories.plot.all any occurence of the string “XXX” is replaced by the country name.

verbose

Logical switching log messages on and off.

uncertainty

Logical: TRUE means uncertainty of past TFR should be plotted with the same level of uncertainty interval.

thin

Thinning for past TFR estimation.

burnin

Burn-in for past TFR estimation.

col_unc

Color of past TFR estimation uncertainty plot.

Details

tfr.trajectories.plot plots posterior distribution of TFR trajectories for a given country. tfr.trajectories.table gives the same output as a table. tfr.trajectories.plot.all creates a set of graphs (one per country) that are stored in output.dir.

The median and given probability intervals are computed using all available trajectories. Thus, nr.traj does not influence those values - it is used only to control the number of trajectories plotted.

Author(s)

Hana Sevcikova, Leontine Alkema

See Also

bayesTFR.prediction

Examples

## Not run: 
sim.dir <- file.path(find.package("bayesTFR"), "ex-data", "bayesTFR.output")
pred <- get.tfr.prediction(sim.dir)
tfr.trajectories.plot(pred, country="Burkina Faso", pi=c(80, 95))
tfr.trajectories.table(pred, country="Burkina Faso", pi=c(80, 95))

## End(Not run)

[Package bayesTFR version 7.0-4 Index]