Hello,

sorry that I interfer, but I tried to do this

The SymTest matrix:

     A   B   C   D   E   F   G
A 0.3 0.1 0.5 0.7 0.2 0.8 0.1
B 0.1 0.5 0.4 0.6 0.7 0.3 0.7
C 0.5 0.4 0.3 0.5 0.1 0.1 0.5
D 0.7 0.6 0.5 0.4 0.3 0.5 0.7
E 0.2 0.7 0.1 0.3 0.5 0.2 0.1
F 0.8 0.3 0.1 0.5 0.2 0.3 0.5
G 0.1 0.7 0.5 0.7 0.1 0.5 0.1

 >g
A graphAM graph with undirected edges
Number of Nodes = 7
Number of Edges = 28

g <- new("graphAM", adjMat=SymTest, values=list(weight=0))
 > plot(g)
Fehler in as.vector(x, "double") : kann nicht nach Vektor umwandeln
(Error in as.vector(x, "double") : can not convert to vector)

what goes wrong?

Thanks in advance

Birgit

Am 29.08.2007 um 07:19 schrieb Gabor Grothendieck:

> Try this:
>
> # test data
> mat <- structure(c(1, 0.325141612, 0.002109751, 0.250153137,  
> 0.0223676,
> 1, 0.342654, 0.1987485, 0.9723831, 0.9644216, 1, 0.7391222, 0.394331,
> 0.5460461, 0.7080224, 1), .Dim = c(4L, 4L), .Dimnames = list(
>     c("a", "b", "c", "d"), c("a", "b", "c", "d")))
>
> library(sna)
>
> # draw edges according to value
> gplot(mat, edge.lwd = mat, label = rownames(mat))
>
> # thresholding at 0.5
>  gplot(mat > .5, label = rownames(mat))
>
>
> On 8/28/07, H. Paul Benton <hpbenton@scripps.edu> wrote:
>> Hello,
>>
>>    I apologise if someone has already answered this but I searched  
>> and
>> googled but didn't find anything.
>>
>>    I have a matrix which gives me the similarity of each item to each
>> other. I would like to turn this matrix into something like what they
>> have in the graph package with the nodes and edges.
>> http://cran.r-project.org/doc/packages/graph.pdf . However I  
>> cannot find
>> a method to convert my matrix to an object that graph can use.
>>
>> my similarity matrix looks like:
>>> sim[1:4,]
>>                a          b          c          d
>> [a]  1.000000000  0.0223676  0.9723831  0.3943310
>> [b]  0.325141612  1.0000000  0.9644216  0.5460461
>> [c]  0.002109751  0.3426540  1.0000000  0.7080224
>> [d]  0.250153137  0.1987485  0.7391222  1.0000000
>>
>> please don't get caught up with the numbers I simple made this to  
>> show.
>> I have not produce the code yet to make my similitary matrix.
>>
>> Does anyone know a method to do this or do I have to write  
>> something. :(
>> If I do any starter code :D jj. If I've read something wrong or
>> misunderstood my apologies.
>>
>> cheers,
>>
>>
>> Paul
>>
>>
>> --
>> Research Technician
>> Mass Spectrometry
>>   o The
>>  /
>> o Scripps
>>  \
>>   o Research
>>  /
>> o Institute
>>
>> ______________________________________________
>> R-help@stat.math.ethz.ch 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.
>>
>
> ______________________________________________
> R-help@stat.math.ethz.ch 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.

Birgit Lemcke
Institut für Systematische Botanik
Zollikerstrasse 107
CH-8008 Zürich
Switzerland
Ph: +41 (0)44 634 8351
birgit.lemcke@systbot.uzh.ch






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