plot.sensitivity: plots the results of calls to the sensitivity functions.

In sensitivityPStrat: Principal Stratification Sensitivity Analysis Functions

Description

Functions used to plot the objects created by the sensitivityPStrat family of functions.

Usage

## S3 method for class 'sensitivity.1.0d'
plot(x, xlim, ylim,
     xlab = expression(beta), ylab = "ACE",
     display = c("analytic", "bootstrap"),
     ci.select = 1,
     col = "black", line.col = col, point.col = col,
     analytic.col = "red", analytic.line.col = analytic.col,
     analytic.point.col = analytic.col,
     bootstrap.col = "green", bootstrap.line.col = bootstrap.col,
     bootstrap.point.col = bootstrap.col,
     panel.last = NULL, type = "l", ...)

## S3 method for class 'sensitivity.2.0d'
plot(x, xlim, ylim, xlab = expression(beta[0]), ylab = expression(beta[1]),
     display = c("analytic", "bootstrap"), col = c(gray(.9), gray(1), gray(.8)),
     panel.last = NULL, ...)

## S3 method for class 'sensitivity.1.1d'
plot(x, xlim, ylim,
     xlab = expression(beta), ylab = "SCE",
     t.point, display = c("analytic", "bootstrap"),
     col = "black", line.col = col, point.col = col,
     analytic.col = "red", analytic.line.col = analytic.col,
     analytic.point.col = analytic.col,
     bootstrap.col = "green", bootstrap.line.col = bootstrap.col,
     bootstrap.point.col = bootstrap.col,
     panel.last = NULL, type = "l", ...)

Arguments

x	sensitivity object
t.point	the time point at which data to create the plot.
display	character vector. Controls which confidence interval to use plot.
ci.select	integer vector or all. Selects the confidence interval to be ploted. If set to all then all confidence intervals are plotted. Default value is 1.
line.col	the color all the lines should be.
point.col	the color all the infinity points should be.
analytic.col	vector; the color of all of the analytic confidence interval markings. Value are recycled if more confidence intervals are selected then given color values.
analytic.line.col	vector;the color of all of the analytic confidence interval lines. Value are recycled if more confidence intervals are selected then given color values.
analytic.point.col	vector; the color of all of the analytic confidence interval infinity points. Value are recycled if more confidence intervals are selected then given color values.
bootstrap.col	vector; the color of all of the bootstrap confidence interval markings. Value are recycled if more confidence intervals are selected then given color values.
bootstrap.line.col	vector; the color of all of the bootstrap confidence interval lines. Value are recycled if more confidence intervals are selected then given color values.
bootstrap.point.col	vector; the color of all of the bootstrap confidence interval infinity points. Value are recycled if more confidence intervals are selected then given color values.
xlim, ylim, xlab, ylab, col, panel.last, type	see plot.default
...	arguments passed to plot.default

Author(s)

Charles Dupont
Department of Biostatistics
Vanderbilt University

See Also

plot.default

Examples

data(vaccine.trial)

ansJR<-with(vaccine.trial,
          sensitivityJR(z=treatment,s=hiv.outcome,y=logVL,
                    beta0=c(-1,-.5,-.25,0,.25,.5,1),
                    beta1=c(-1,-.5,-.25,0,.25,.5,1),
                    phi=c(0.95,0.90), selection="infected",
                    groupings=c("placebo","vaccine"),
                    N.boot=50)
         )

plot(ansJR)

ans<-with(vaccine.trial,
          sensitivityGBH(z=treatment,s=hiv.outcome,y=logVL,
                    beta=c(-Inf,-1,0.75,-0.5,-0.25,0,.25,.5,.75,1,Inf),
                    selection="infected",
                    groupings=c("placebo","vaccine"),
                    empty.principal.stratum=c("not infected","infected"),
                    ci.method="bootstrap", ci=c(0.95, 0.9, 0.9),
                    ci.type=c("twoSided", "upper", "lower"),
                    custom.FUN=function(mu0, mu1, ...) mu1 - mu0,
                    N.boot=50, method=c("ACE", "T1", "T2"),
                    upperTest=TRUE, lowerTest=TRUE, twoSidedTest=TRUE)
         )

plot(ans, ci.select="all", bootstrap.col=c("red","green","blue"))

sensitivityPStrat documentation built on May 2, 2019, 3:37 p.m.