funnelplot: Funnel Plot

In SAMURAI: Sensitivity Analysis of a Meta-analysis with Unpublished but Registered Analytical Investigations

Description

This function (1) imputes data for a meta-analytic data set with unpublished studies, then (2) generates a funnel plot.

Usage

funnelplot(table, 
  binary=TRUE, mean.sd=TRUE,
  higher.is.better=NA,
  outlook=NA,
  vpos=NA, pos=NA, neg=NA, vneg=NA,
  level=95, 
  binary.measure="RR", continuous.measure="SMD",
  summary.measure="SMD", method="DL", 
  random.number.seed=NA, sims=1, smd.noise=0.01,
  title="", pch.pub=19, pch.unpub=0)

Arguments

table	The name of the table containing the meta-analysis data.
binary	TRUE if the outcomes are binary events; FALSE if the outcome data is continuous.
mean.sd	TRUE if the data set includes the mean and standard deviation of the both the control and experimental arms of studies with continuous outcomes; FALSE otherwise.
higher.is.better	TRUE if higher counts of binary events or higher continuous outcomes are desired; FALSE otherwise. For continuous outcomes, set as FALSE if a lower outcome (eg. a more negative number) is desired.
outlook	If you want all unpublished studies to be assigned the same outcome, set this parameter to one of the following values: "very positive", "positive", "current effect", "negative", "very negative", "no effect", "very positive CL", "positive CL", "negative CL", "very negative CL".
vpos	The user-defined effect size for unpublished studies with a "very positive" outlook.
pos	The user-defined effect size for unpublished studies with a "positive" outlook.
neg	The user-defined effect size for unpublished studies with a "negative" outlook.
vneg	The user-defined effect size for unpublished studies with a "very negative" outlook.
level	The confidence level, as a percent.
binary.measure	The effect size measure used for binary outcomes. "RR" for relative risk; "OR" for odds ratios.
continuous.measure	The effect size measure used for continuous outcomes. "SMD" for standardized mean difference (with the assumption of equal variances).
summary.measure	The measure used for summary effect sizes.
method	The same parameter in the escalc() function of the metafor package. "DL" for the DerSimonian-Laird method.
random.number.seed	Leave as NA if results are to be randomized each time. Set this value to a integer between 0 and 255 if results are to be consistent (for purposes of testing and comparison).
sims	The number of simulations to run per study when imputing unpublished studies with binary outcomes.
smd.noise	The standard deviation of Gaussian random noise to be added to standardized mean differences when imputing unpublished studies with continuous outcomes.
title	The title of the funnel plot.
pch.pub	The symbol used to denote a published study.
pch.unpub	The symbol used to denote an unpublished study.

Note

The function employs functions in the metafor package: escalc() and forest().

Author(s)

Noory Kim

See Also

forestsens

Examples

library(SAMURAI)

data(Hpylori)
funnelplot(Hpylori, binary=TRUE, higher.is.better=FALSE, 
  outlook="very negative")

data(greentea)
funnelplot(greentea, binary=FALSE, higher.is.better=FALSE)

SAMURAI documentation built on May 1, 2019, 11:31 p.m.