forest_plot: Forest Plot

In RBesT: R Bayesian Evidence Synthesis Tools

Forest Plot

Description

Creates a forest plot for gMAP analysis objects.

Usage

forest_plot(
  x,
  prob = 0.95,
  est = c("both", "MAP", "Mean", "none"),
  model = c("stratified", "both", "meta"),
  point_est = c("median", "mean"),
  size = 1.25,
  alpha = 0.5
)

Arguments

x	gMAP object.
prob	confidence interval width and probability mass of credible intervals.
est	can be set to one of both (default), MAP, Mean or none. Controls which model estimates are to be included.
model	controls which estimates are displayed per study. Either stratified (default), both or meta.
point_est	shown point estimate. Either median (default) or mean.
size	controls point and linesize.
alpha	transparency of reference line. Setting alpha=0 suppresses the reference line.

Details

The function creates a forest plot suitable for gMAP analyses. Note that the Meta-Analytic-Predictive prior is included by default in the plot as opposed to only showing the estimated model mean. See the examples below to obtain standard forest plots.

Also note that the plot internally flips the x and y-axis. Therefore, if you want to manipulate the x-axis, you have to give commands affecting the y-axis (see examples).

Value

The function returns a ggplot2 plot object.

Customizing ggplot2 plots

The returned plot is a ggplot2 object. Please refer to the "Customizing Plots" vignette which is part of RBesT documentation for an introduction. For simple modifications (change labels, add reference lines, ...) consider the commands found in bayesplot-helpers. For more advanced customizations please use the ggplot2 package directly. A description of the most common tasks can be found in the R Cookbook and a full reference of available commands can be found at the ggplot2 documentation site.

See Also

gMAP

Examples

# we consider the example AS MAP analysis
example(AS)

# default forest plot for a gMAP analysis
forest_plot(map_AS)

# standard forest plot (only stratified estimate and Mean)
forest_plot(map_AS, est=c("Mean"), model="stratified")

# to further customize these plots, first load bayesplot and ggplot2
library(bayesplot)
library(ggplot2)

# to make plots with red colors, big fonts for presentations, suppress
# the x axis label and add another title (with a subtitle)
color_scheme_set("red")
theme_set(theme_default(base_size=16))
forest_plot(map_AS, size=2) +
   yaxis_title(FALSE) +
     ggtitle("Ankylosing Spondylitis Forest Plot",
             subtitle="Control Group Response Rate")

# the defaults are set with
color_scheme_set("blue")
theme_set(theme_default(base_size=12))

RBesT documentation built on May 29, 2024, 10:40 a.m.