print.sienaMeta: Methods for processing sienaMeta objects

In RSiena: Siena - Simulation Investigation for Empirical Network Analysis

Methods for processing sienaMeta objects

Description

print, summary, and plot methods for sienaMeta objects; and a function to write a LaTeX table.

Usage

## S3 method for class 'sienaMeta'
print(x, file=FALSE, reportEstimates=FALSE, ...)

## S3 method for class 'sienaMeta'
summary(object, file=FALSE, extra=TRUE, ...)

## S3 method for class 'summary.sienaMeta'
print(x, file=FALSE, extra=TRUE, ...)

## S3 method for class 'sienaMeta'
plot(x, ..., which = 1:length(x$theta),
                         useBound=TRUE, layout = c(2,2))
meta.table(x, d=3, option=2,
    filename=paste(deparse(substitute(x)),'_global.tex',sep=""), align=TRUE)

Arguments

object	An object of class sienaMeta.
x	An object of class sienaMeta, or summary.sienaMeta as appropriate.
file	Boolean: if TRUE, sends output to file named x$projname.txt. If FALSE, output is to the terminal.
reportEstimates	Boolean: whether to report all estimates and standard errors.
extra	Boolean: if TRUE, prints more information.
which	Set of effects contained in the plot (given by sequence numbers).
useBound	Boolean: whether to restict plotted symbols to the bound used in the call of sienaMeta.
layout	Vector giving number of rows and columns in the arrangement of the several panels in a rectangular array, possibly spanning multiple pages.
d	Number of decimals to be used in table.
option	1: results without normality assumptions; 2: results with normality assumptions, with confidence intervals; 3: results with normality assumptions, with standard errors.
filename	filename for output; if "", printed to the console.
align	Whether to align numbers at the decimal point.
...	For extra arguments (none used at present).

Value

The function print.sienaMeta prints details of the merged estimates of the meta-analysis carried out by siena08, with test statistics. See the help page for siena08 for what is produced by this function.

The function summary.sienaMeta prints details as for the print method, but also details of the sienaFit objects included.

Output from either can be directed to a file by using the argument file. It will be appended to any existing file of the same name: projname.txt where projname is the value of the argument to siena08.

The function meta.table writes a combined table of results for all parameters to a LaTeX file in (as default) the current working directory. This table is a more compact version of the results presented by print.sienaMeta.

The function plot.sienaMeta plots estimates against standard errors for each effect, with reference lines added at the two-sided significance threshold 0.05. It returns an object of class trellis, of the lattice package. Effects for which a score test was requested are not plotted.
Another funnel plot, not using siena08, is available as funnelPlot.

Author(s)

Ruth Ripley, Tom Snijders

References

Snijders, T.A.B, and Baerveldt, C. (2003), A Multilevel Network Study of the Effects of Delinquent Behavior on Friendship Evolution. Journal of Mathematical Sociology 27, 123–151.

See also the Siena manual and https://www.stats.ox.ac.uk/~snijders/siena/

See Also

siena08

Examples

## Not run: 
# A meta-analysis for three groups does not make much sense
# for generalizing to a population of networks,
# but it the Fisher combinations of p-values are meaningful.
# But using three groups shows the idea.

Group1 <- sienaDependent(array(c(N3401, HN3401), dim=c(45, 45, 2)))
Group3 <- sienaDependent(array(c(N3403, HN3403), dim=c(37, 37, 2)))
Group4 <- sienaDependent(array(c(N3404, HN3404), dim=c(33, 33, 2)))
dataset.1 <- sienaDataCreate(Friends = Group1)
dataset.3 <- sienaDataCreate(Friends = Group3)
dataset.4 <- sienaDataCreate(Friends = Group4)
OneAlgorithm <- sienaAlgorithmCreate(projname = "SingleGroups")
effects.1 <- getEffects(dataset.1)
effects.3 <- getEffects(dataset.3)
effects.4 <- getEffects(dataset.4)
effects.1 <- includeEffects(effects.1, transTrip)
effects.1 <- setEffect(effects.1, transRecTrip, fix=TRUE, test=TRUE)
effects.3 <- includeEffects(effects.3, transTrip)
effects.3 <- setEffect(effects.3, transRecTrip, fix=TRUE, test=TRUE)
effects.4 <- includeEffects(effects.4, transTrip)
effects.4 <- setEffect(effects.4, transRecTrip, fix=TRUE, test=TRUE)
ans.1 <- siena07(OneAlgorithm, data=dataset.1, effects=effects.1, batch=TRUE)
ans.3 <- siena07(OneAlgorithm, data=dataset.3, effects=effects.3, batch=TRUE)
ans.4 <- siena07(OneAlgorithm, data=dataset.4, effects=effects.4, batch=TRUE)
ans.1
ans.3
ans.4
meta <- siena08(ans.1, ans.3, ans.4)
print(meta, reportEstimates=FALSE)
print(meta)
summary(meta)
# For specifically presenting the Fisher combinations:
# First determine the number of estimated effects:
(neff <- sum(sapply(meta, function(x){ifelse(is.list(x),
        !is.null(x$cjplus),FALSE)})))
Fishers <- t(sapply(1:neff,
        function(i){c(meta[[i]]$cjplus, meta[[i]]$cjminus,
                        meta[[i]]$cjplusp, meta[[i]]$cjminusp, 2*meta[[i]]$n1 )}))
Fishers <- as.data.frame(Fishers, row.names=names(meta)[1:neff])
names(Fishers) <- c('Fplus', 'Fminus', 'pplus', 'pminus', 'df')
Fishers
# For plotting:
plo <- plot(meta, layout = c(3,1))
plo
plo[3]
# Show effects of bound (bounding at 0.4 is not reasonable, just for example)
meta <- siena08(ans.1, ans.3, ans.4, bound=0.4)
plot(meta, which=c(2,3), layout=c(2,1))
plot(meta, which=c(2,3), layout=c(2,1), useBound=FALSE)
meta.table(meta, option=3, file='')

## End(Not run)

RSiena documentation built on June 22, 2024, 11:05 a.m.