bar graphs

[Maarten de Groot]

Dear list,

I am trying to prepare a bar graph with error bars for males and
females that are nested in treatments. However, then I get a error
function that the dll file "digest" can not be found. It worked before
and I already reinstalled ggplot2 on my computer but I have still the
same problem. Did something changed in newer versions of ggplot2 and how
can solve this problem? The script and the error message can be found below.

>p <- ggplot(mydata, aes(fill=gender,y=average, x=treatment))
>limits <- aes(ymax = average + se, ymin=average - se)
>p + geom_bar(position="dodge", stat="identity")
>dodge <- position_dodge(width=0.9)

>p + geom_bar(position="dodge") +
> geom_errorbar(limits, position=dodge, width=0.25)

Error in library.dynam(lib, package, package.lib) :
DLL 'digest' not found: maybe not installed for this architecture?

thanks in advance for your help.

Kind regards,

Maarten

[Brandon Hurr]

Maarten, 

Sounds like an installation problem to me. Can you copy/paste your sessionInfo() in a reply? 

B

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[Dennis Murphy]

Hi:

This is what I get when loading ggplot2 in a fresh session:

> library(ggplot2)
Loading required package: reshape
Loading required package: plyr

Attaching package: 'plyr'

The following object(s) are masked _by_ '.GlobalEnv':

    ozone


Attaching package: 'reshape'

The following object(s) are masked from 'package:plyr':

    round_any

Loading required package: grid
Loading required package: proto

Attaching package: 'ggplot2'

The following object(s) are masked _by_ '.GlobalEnv':

    mpg

> sessionInfo()
R version 2.12.1 Patched (2010-12-18 r53869)
Platform: x86_64-pc-mingw32/x64 (64-bit)

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252  
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                         
[5] LC_TIME=English_United States.1252   

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods 
[8] base    

other attached packages:
[1] ggplot2_0.8.9 proto_0.3-8   reshape_0.8.4 plyr_1.4 

Notice that it does not depend any longer on the digest package. I'm guessing you have a fairly out of date R version; perhaps you need to upgrade R before you upgrade ggplot2.

As for your proposed dynamite plot, I'd suggest losing the bars and replacing them with a center point on the error bar. This is especially true if you hope to detect interactions or patterns between your two factors.

http://biostat.mc.vanderbilt.edu/wiki/Main/DynamitePlots
http://emdbolker.wikidot.com/blog:dynamite

HTH,
Dennis

[Maarten de Groot]

Here my session info and what happens what
> sessionInfo()
R version 2.12.1 (2010-12-16)
Platform: i386-pc-mingw32/i386 (32-bit)

locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United
States.1252 LC_MONETARY=English_United States.1252
LC_NUMERIC=C LC_TIME=English_United States.1252

attached base packages:
[1] grid stats graphics grDevices datasets utils
methods base

other attached packages:
[1] ggplot2_0.8.9 proto_0.3-8 reshape_0.8.3 plyr_1.4

loaded via a namespace (and not attached):
[1] lattice_0.19-13 lme4_0.999375-37 Matrix_0.999375-46
nlme_3.1-97 stats4_2.12.1

> library(ggplot2)
Loading required package: reshape
Loading required package: plyr

Attaching package: 'reshape'

The following object(s) are masked from 'package:plyr':

round_any

Loading required package: grid
Loading required package: proto

I already upgraded R, but the problems are still there...

Maarten

On 2/18/2011 11:59 AM, Dennis Murphy wrote:
> d package: reshape
> Loading required pack

[Brandon Hurr]

Maarten, 

It looks ok to me, perhaps someone else can spot the problem. 

Dennis, 

I'm trying to make a bar plot with error bars, but with two scales for the Y axis.  You interested? :P

Brandon

On Fri, Feb 18, 2011 at 11:03, Maarten de Groot <Maarten...@nib.si> wrote:

Here it is...

> sessionInfo()
R version 2.12.1 (2010-12-16)
Platform: i386-pc-mingw32/i386 (32-bit)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252 LC_NUMERIC=C                           LC_TIME=English_United States.1252

attached base packages:
[1] grid      stats     graphics  grDevices datasets  utils     methods   base

other attached packages:
[1] ggplot2_0.8.9 proto_0.3-8   reshape_0.8.3 plyr_1.4

loaded via a namespace (and not attached):
[1] lattice_0.19-13    lme4_0.999375-37   Matrix_0.999375-46 nlme_3.1-97        stats4_2.12.1

Maarten

[romunov]

Can you give us some dummy data to play with?


Cheers,
Roman

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[Dennis Murphy]

Hi:

The only difference I can see is that your version of the reshape package is one behind mine. Upgrade that, try again and see if that fixes the problem.

Dennis

[Maarten de Groot]

Hi,

Thanks to Roman It is all working again. At the end I put my libraries in another folder and re installed R and now it is working. Maybe there was a clash with another library...

Still thanks for all the suggestions.

Maarten