R help - Jul 2013 - Lattice barchart with error bars

Hi,

I'd like to draw a lattice barchart of means with error bars to show
the standard deviation. I have the barchart, how do I add the error
bars?

require(datasets)
require(lattice)
x <- aggregate(weight ~ Diet, ChickWeight, function(x) c(mean=mean(x),
sd=sd(x)))
barchart(weight[,'mean'] ~ Diet, x)

Thanks,
Shaun

Shaun:

I understand that this type of plot is standard in many disciplines,
but it really is awful (google on 'Dynamite plots' for some more
erudite perspectives). Have you considered bwplot() for your
unaggregated data instead?

(No need to reply. It's July 4, and I'm just waving a little flag for
better graphs).

Cheers,
Bert

On Thu, Jul 4, 2013 at 2:53 PM, Shaun Jackman <sjackman at gmail.com>
wrote:
> Hi,
>
> I'd like to draw a lattice barchart of means with error bars to show
> the standard deviation. I have the barchart, how do I add the error
> bars?
>
> require(datasets)
> require(lattice)
> x <- aggregate(weight ~ Diet, ChickWeight, function(x) c(mean=mean(x),
> sd=sd(x)))
> barchart(weight[,'mean'] ~ Diet, x)
>
> Thanks,
> Shaun
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.


-- 

Bert Gunter
Genentech Nonclinical Biostatistics

Internal Contact Info:
Phone: 467-7374
Website:
http://pharmadevelopment.roche.com/index/pdb/pdb-functional-groups/pdb-biostatistics/pdb-ncb-home.htm

Hi Bert, Dennis,

I'll agree that using a barchart was a poor choice. I was in fact using a
notched bwplot to show the median and confidence interval of the median. In
this case it's the median and confidence interval that I want to highlight,
and I find that the visual noise of the box and whiskers is detracting from
the focus, and those wee notches are not much to focus on. So, I'd like to
draw a stripplot with error bars, preferably in Lattice. Let's call this a
TIE fighter plot. Any suggestions?

Cheers,
Shaun

On 4 July 2013 18:00, Dennis Murphy <djmuser@gmail.com> wrote:
> If you consult the lattice package help, you'll discover there is no
> panel_errorbar() function, which would imply the package developers
> have a distaste for that type of graphic. If you fish around the
> R-help archives, though, you might be able to find someone who wrote a
> function to do error bars in lattice. (Use a searchable archive such
> as Nabble to hunt for it.)
>
> Error bar plots are easier to do in the ggplot2 package, since there
> is a specific function to generate the error bar 'geometry'
> (geom_errorbar). See http://docs.ggplot2.org/current/ for an expanded
> version of the package help pages, which include the graphs generated
> by the code. I believe there's also a base graphics version that you
> can get from the gplots package, but I don't know a lot about it.
>
> Dennis
>
> On Thu, Jul 4, 2013 at 2:53 PM, Shaun Jackman <sjackman@gmail.com>
wrote:
> > Hi,
> >
> > I'd like to draw a lattice barchart of means with error bars to
show
> > the standard deviation. I have the barchart, how do I add the error
> > bars?
> >
> > require(datasets)
> > require(lattice)
> > x <- aggregate(weight ~ Diet, ChickWeight, function(x)
c(mean=mean(x),
> > sd=sd(x)))
> > barchart(weight[,'mean'] ~ Diet, x)
> >
> > Thanks,
> > Shaun
> >
> > ______________________________________________
> > R-help@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
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