Message-ID: <YTBPR01MB29583386337D952720CAEE35A4DE0@YTBPR01MB2958.CANPRD01.PROD.OUTLOOK.COM>
Date: 2020-12-23T00:54:02Z
From: Dylan Johnson
Subject: [R-meta] Putting pooled effects from different multilevel meta analyses into the same forest plot
In-Reply-To: <ce678eaf83bd4846aeb1c3dd67145398@UM-MAIL3214.unimaas.nl>
Hello,
Is there any reason that the plotwidth function isn?t working with the following forest plot:
dev.new(width=10, height=1)
forest(c(coef(m.overall), coef(m.overall2), coef(m.overall3)),
c(vcov(m.overall), vcov(m.overall2), round(vcov(m.overall3), digits = 3)),
slab=c("Threat (k=39)", "Deprivation (k=45)", "Composite (k=125)"),
header=c("Inhibitory Control", "Hedge's g [95% CI]"), xlab="Hedge's g",
top=2, refline=NA, xlim=c(-3.2,1), at=(c(0,-0.25,-0.50,-0.75)), psize=1, efac=0, plotwidth=unit(6, "cm") )
addpoly(c(coef(m.overall), coef(m.overall2), coef(m.overall3)),
c(vcov(m.overall), vcov(m.overall2), vcov(m.overall3)),
rows=3:1, efac=2, annotate=FALSE, col = 2, border = 2)
It doesn?t seem to change the width of the forest plot no matter what values I type in.
Thank you
Dylan Johnson, MSc
MA Student, School and Clinical Child Psychology
Department of Applied Psychology and Human Development
University of Toronto
252 Bloor Street West
Toronto, ON M5S 1V6
From: Viechtbauer, Wolfgang (SP)<mailto:wolfgang.viechtbauer at maastrichtuniversity.nl>
Sent: December 21, 2020 10:55 AM
To: Michael Dewey<mailto:lists at dewey.myzen.co.uk>; Dylan Johnson<mailto:dylanr.johnson at mail.utoronto.ca>
Cc: r-sig-meta-analysis at r-project.org<mailto:r-sig-meta-analysis at r-project.org>
Subject: RE: [R-meta] Putting pooled effects from different multilevel meta analyses into the same forest plot
EXTERNAL EMAIL:
As Michael suggested. Or, if you install the 'devel' version of metafor, then 'col' will also take a vector of colors in addpoly().
Best,
Wolfgang
>-----Original Message-----
>From: Michael Dewey [mailto:lists at dewey.myzen.co.uk]
>Sent: Monday, 21 December, 2020 10:54
>To: Dylan Johnson; Viechtbauer, Wolfgang (SP)
>Cc: r-sig-meta-analysis at r-project.org
>Subject: Re: [R-meta] Putting pooled effects from different multilevel meta
>analyses into the same forest plot
>
>Dear Dylan
>
>Perhaps plot them one at a time?
>
>Michael
>
>On 20/12/2020 22:46, Dylan Johnson wrote:
>> Apologies for not CC-ing the mailing list.
>>
>> As a last question, is there a way for me to make each of these polygons a
>different colour as opposed to all the same:
>>
>> forest(c(coef(m.overall), coef(m.overall2), coef(m.overall3)),
>> c(vcov(m.overall), vcov(m.overall2), round(vcov(m.overall3),
>digits = 3)),
>> slab=c("Threat (k=23)", "Deprivation (k=14)", "Composite (k=77)"),
>> header=c("Cognitive Flexibility", "Hedge's g [95% CI]"),
>xlab="Hedge's g",
>> top=2, refline=NA, xlim=c(-3,1), at=log(c(.2, .5, 1)), psize=1,
>efac=0)
>>
>> addpoly(c(coef(m.overall), coef(m.overall2), coef(m.overall3)),
>> c(vcov(m.overall), vcov(m.overall2), vcov(m.overall3)),
>> rows=3:1, efac=2, annotate=FALSE, col = 2)
>>
>> Dylan Johnson, MSc
>>
>> MA Student, School and Clinical Child Psychology
>> Department of Applied Psychology and Human Development
>>
>> University of Toronto
>> 252 Bloor Street West
>>
>> Toronto, ON M5S 1V6
>>
>> From: Viechtbauer, Wolfgang
>(SP)<mailto:wolfgang.viechtbauer at maastrichtuniversity.nl>
>> Sent: December 20, 2020 3:26 PM
>> To: Dylan Johnson<mailto:dylanr.johnson at mail.utoronto.ca>
>> Cc: R meta<mailto:r-sig-meta-analysis at r-project.org>
>> Subject: RE: Putting pooled effects from different multilevel meta
>analyses into the same forest plot
>>
>> Please always cc the mailing list when replying.
>>
>> You could use addpoly() to draw the polygons on top. Continuing with the
>example:
>>
>> addpoly(c(coef(res.r), coef(res.n), coef(res)),
>> c(vcov(res.r), vcov(res.n), vcov(res)),
>> rows=3:1, efac=2, annotate=FALSE)
>>
>> Best,
>> Wolfgang
>>
>>> -----Original Message-----
>>> From: Dylan Johnson [mailto:dylanr.johnson at mail.utoronto.ca]
>>> Sent: Sunday, 20 December, 2020 20:38
>>> To: Viechtbauer, Wolfgang (SP)
>>> Subject: RE: Putting pooled effects from different multilevel meta
>analyses
>>> into the same forest plot
>>>
>>> Thanks for the script, I managed to get it working!
>>>
>>> Do you know if there is any way to get them to show up with the diamond
>>> shape plotted instead of the squares? They are technically pooled effects
>so
>>> I think it would hammer that home better.
>>>
>>> Thanks!
>>>
>>> Dylan
>>>
>>> Dylan Johnson, MSc
>>> MA Student, School and Clinical Child Psychology
>>> Department of Applied Psychology and Human Development
>>> University of Toronto
>>> 252 Bloor Street West
>>> Toronto, ON M5S 1V6
>>>
>>> From: Viechtbauer, Wolfgang (SP)
>>> Sent: December 20, 2020 6:59 AM
>>> To: Dylan Johnson; r-sig-meta-analysis at r-project.org
>>> Subject: RE: Putting pooled effects from different multilevel meta
>analyses
>>> into the same forest plot
>>>
>>> Hi Dylan,
>>>
>>> Here is an example using rma(), but the same principle applies to models
>>> fitted with rma.mv().
>>>
>>> dat <- dat.bcg
>>> dat <- escalc(measure="RR", ai=tpos, bi=tneg, ci=cpos, di=cneg, data=dat)
>>> res <- rma(yi, vi, data=dat)
>>> res.r <- rma(yi, vi, data=dat, subset=alloc=="random")
>>> res.n <- rma(yi, vi, data=dat, subset=alloc!="random")
>>>
>>> dev.new(width=10, height=6)
>>> forest(c(coef(res.r), coef(res.n), coef(res)),
>>> c(vcov(res.r), vcov(res.n), vcov(res)),
>>> slab=c("With Random Assignment", "Without Random Assignment", "All
>>> Studies"),
>>> header=c("Subset", "Risk Ratio [95% CI]"), xlab="Risk Ratio (log
>>> scale)",
>>> top=2, refline=NA, xlim=c(-3,1), atransf=exp, at=log(c(.2, .5,
>1)),
>>> psize=1, efac=0)
>>>
>>> Best,
>>> Wolfgang
>>>
>>>> -----Original Message-----
>>>> From: R-sig-meta-analysis [mailto:r-sig-meta-analysis-bounces at r-
>>> project.org]
>>>> On Behalf Of Dylan Johnson
>>>> Sent: Sunday, 20 December, 2020 2:01
>>>> To: r-sig-meta-analysis at r-project.org
>>>> Subject: [R-meta] Putting pooled effects from different multilevel meta
>>>> analyses into the same forest plot
>>>>
>>>> Hello,
>>>>
>>>> I am currently using the rma.mv function to carry out my metas and would
>>>> like to display two pooled subgroups from one of them and an additional
>>>> pooled estimate from another.
>>>>
>>>> Is there anyways to go about doing this?
>>>>
>>>> Many thanks!
>>>>
>>>> Dylan
>>>>
>>>> Dylan Johnson, MSc
>>>>
>>>> MA Student, School and Clinical Child Psychology
>>>> Department of Applied Psychology and Human Development
>>>>
>>>> University of Toronto
>>>> 252 Bloor Street West
>>>>
>>>> Toronto, ON M5S 1V6
[[alternative HTML version deleted]]