R help - Dec 2009 - scatter3d with groups

Dear R users,

I'm currently visualizing my data using scatter3d from the "Rcmdr"
package. I have  data points which can be separated in two classes. Data 
points from class 'A' should be colourised red and data points in class 
'B' should be colourised 'blue'. No matter what I try, the data
points
are always blue.

I attached a (very) minimal example to reproduce my problem.

Thanks,
    Philippe

library("Rcmdr")

scatter3d(x=c(1,2), y=c(1,2), z=c(1,2),
          groups=as.factor(c(1,2)),
          point.col=c('red','blue'), surface=F)

On Dec 2, 2009, at 4:09 PM, Philippe Thomas wrote:
> Dear R users,
>
> I'm currently visualizing my data using scatter3d from the
"Rcmdr"
> package. I have  data points which can be separated in two classes.  
> Data points from class 'A' should be colourised red and data points
> in class 'B' should be colourised 'blue'. No matter what I
try, the
> data points are always blue.
>
> I attached a (very) minimal example to reproduce my problem.
>
> Thanks,
>   Philippe
>
> library("Rcmdr")
>
> scatter3d(x=c(1,2), y=c(1,2), z=c(1,2),
>         groups=as.factor(c(1,2)),
>         point.col=c('red','blue'), surface=F)
Now that is weird! (I'm not a regular user of Rcmdr.) I didn't think  
that rgl would run under the 64 bit R, but there does seem to be a  
functioning rgl widow that comes up. Hmmm .... Need to investigate  
this further. Looks promising.

Dropping the groups term corrects your color problem, so the colors  
are probably <somehow> being derived from the numerical underpinnings  
of the group factor.

--

David Winsemius, MD
Heritage Laboratories
West Hartford, CT

On Dec 2, 2009, at 5:01 PM, Philippe Thomas wrote:
> David Winsemius schrieb:
>>
>> On Dec 2, 2009, at 4:09 PM, Philippe Thomas wrote:
>>
>>> Dear R users,
>>>
>>> I'm currently visualizing my data using scatter3d from the
"Rcmdr"
>>> package. I have  data points which can be separated in two  
>>> classes. Data points from class 'A' should be colourised
red and
>>> data points in class 'B' should be colourised
'blue'. No matter
>>> what I try, the data points are always blue.
>>>
>>> I attached a (very) minimal example to reproduce my problem.
>>>
>>> Thanks,
>>>  Philippe
>>>
>>> library("Rcmdr")
>>>
>>> scatter3d(x=c(1,2), y=c(1,2), z=c(1,2),
>>>        groups=as.factor(c(1,2)),
>>>        point.col=c('red','blue'), surface=F)
>>
>> Now that is weird! (I'm not a regular user of Rcmdr.) I didn't
>> think that rgl would run under the 64 bit R, but there does seem to  
>> be a functioning rgl widow that comes up. Hmmm .... Need to  
>> investigate this further. Looks promising.
>>
>> Dropping the groups term corrects your color problem, so the colors  
>> are probably <somehow> being derived from the numerical  
>> underpinnings of the group factor.
>>
>> -- 
>>
> Hi David,
>
> thanks for your answer. Dropping the groups term does not solve my  
> problem. After dropping the term  both data points have a red colour.
Then it's probably time to compare details from your sessionInfo(),  
capabilities(), and system specs. I'm on a Mac running with the R64  
GUI and graphics devices vary quite a bit across the range of OSes.

Just to be clear this was my function:

scatter3d(x=c(1,2), y=c(1,2), z=c(1,2),
         point.col=c('red','blue'), surface=F)

 >  capabilities()
     jpeg      png     tiff    tcltk      X11     aqua http/ftp  sockets
     TRUE     TRUE     TRUE     TRUE     TRUE     TRUE     TRUE     TRUE
   libxml     fifo   cledit    iconv      NLS  profmem    cairo
     TRUE     TRUE     TRUE     TRUE     TRUE     TRUE     TRUE

 > sessionInfo()
R version 2.10.0 Patched (2009-10-29 r50258)
x86_64-apple-darwin9.8.0

locale:
[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
[1] mgcv_1.5-6           rgl_0.87             Rcmdr_1.5-3
[4] car_1.2-16           scatterplot3d_0.3-29

loaded via a namespace (and not attached):
[1] grid_2.10.0     lattice_0.17-26 nlme_3.1-96     tools_2.10.0

David Winsemius, MD
Heritage Laboratories
West Hartford, CT