Re: [R] metaplot

From: Viechtbauer Wolfgang (STAT) <wolfgang.viechtbauer_at_maastrichtuniversity.nl>
Date: Fri, 08 Apr 2011 11:38:07 +0200

What version of the metafor package are you using? The option of directly providing the CI bounds was added in version 1.5-0, so make sure you are using the newest version.

Best,

--

Wolfgang Viechtbauer
Department of Psychiatry and Neuropsychology
School for Mental Health and Neuroscience
Maastricht University, P.O. Box 616
6200 MD Maastricht, The Netherlands
Tel: +31 (43) 368-5248
Fax: +31 (43) 368-8689
Web: http://www.wvbauer.com<http://www.wvbauer.com/>

________________________________
From: cheba meier [cheba.meier_at_googlemail.com]
Sent: Friday, April 08, 2011 11:31 AM
To: Viechtbauer Wolfgang (STAT)
Cc: R-help_at_r-project.org
Subject: Re: [R] metaplot

Thank you for your reply.


> forest(log(rr), ci.lb<http://ci.lb>=lci, ci.ub=uci, xlab="Log Relative Risk")
Error in sei^2 : 'sei' is missing Regards, Cheba 2011/4/7 Viechtbauer Wolfgang (STAT) <wolfgang.viechtbauer_at_maastrichtuniversity.nl<mailto:wolfgang.viechtbauer_at_maastrichtuniversity.nl>> Actually, Scott suggested ggplot2, which is available on CRAN: http://cran.r-project.org/web/packages/ggplot2/index.html Moreover, for the metafor package, you do not need "(a,b,c,d) or standard errors for the effect estimates". rr <- c(0.61, 0.35, 1.16, 0.94, 1.16, 0.46, 0.99, 1.05, 1.15, 0.27) lci <- c(-1.69, -1.27, -0.24, -0.54, -1.01, -1.8,-0.89, -1.38, -1.05,-2.04) uci <- c(0.70, -0.82,0.54,0.41,1.30,0.24,0.87,1.48,1.33,-0.57) The lci and uci values are obviously the log-transformed values of the upper and lower CI bounds for the RR. So, you could do: library(metafor) forest(log(rr), ci.lb<http://ci.lb>=lci, ci.ub=uci, xlab="Log Relative Risk") or: forest(log(rr), ci.lb<http://ci.lb>=lci, ci.ub=uci, xlab="Relative Risk", atransf=exp) help(forest.default) will tell you more about using the forest() function. Best, -- Wolfgang Viechtbauer Department of Psychiatry and Neuropsychology School for Mental Health and Neuroscience Maastricht University, P.O. Box 616 6200 MD Maastricht, The Netherlands Tel: +31 (43) 368-5248 Fax: +31 (43) 368-8689 Web: http://www.wvbauer.com ________________________________________ From: r-help-bounces_at_r-project.org<mailto:r-help-bounces_at_r-project.org> [r-help-bounces_at_r-project.org<mailto:r-help-bounces_at_r-project.org>] On Behalf Of cheba meier [cheba.meier_at_googlemail.com<mailto:cheba.meier_at_googlemail.com>] Sent: Thursday, April 07, 2011 4:11 PM To: Scott Chamberlain Cc: R-help_at_r-project.org<mailto:R-help_at_r-project.org>; tlumley_at_uw.edu<mailto:tlumley_at_uw.edu> Subject: Re: [R] metaplot Many thanks for your reply! the Package ‘ggplot’ was removed from the CRAN repository. Formerly available versions can be obtained from the archive<http://cran.r-project.org/src/contrib/Archive/ggplot>(Unfortunately, I am a windows user). The metafor and meta.summaries() still need the (a,b,c,d) or standard errors for the effect estimates! I have the following data rr <- c(0.61, 0.35, 1.16, 0.94, 1.16, 0.46, 0.99, 1.05, 1.15, 0.27) lci <- c(-1.69, -1.27, -0.24, -0.54, -1.01, -1.8,-0.89, -1.38, -1.05,-2.04) uci <- c(0.70, -0.82,0.54,0.41,1.30,0.24,0.87,1.48,1.33,-0.57) rrdata <- data.frame(rr,lci,uci) I can compute standard errors from my data? but the results show different confidence interval? Many thanks in advance, Cheba 2011/4/6 Scott Chamberlain <scttchamberlain4_at_gmail.com<mailto:scttchamberlain4_at_gmail.com>>
> What about the metafor package?
>
>
> Or just create your own plot.
>
> For example, using ggplot2 package:
>
> limits <- aes(ymax = OR + (OR - 95%LCI), ymin = OR - (OR - 95%LCI))
> ggplot(dataframe, aes(x = Study.Name, y = OR)) + geom_point() +
> geom_errobar(limits)
>
> Best,
> Scott
>
> On Wednesday, April 6, 2011 at 11:53 AM, cheba meier wrote:
>
> Dear all,
>
> I have a four variable: Stuy.Name, OR, 95%LCI and 95%UCI and I would like
> to
> create a meta analysis plot. I can't use meta.MH function in metaplot
> because I do not have
> n.trt, n.ctrl, col.trt, col.ctrl are not available! Is there an alternative
> way to do it?
>
> Many thanks in advance,
> Cheba
>
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>
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