R help - Jun 2009 - R: Best way to plot a Matrix of all possible pair combinations

Hallo R Users,
Please help
 I have some distance matrix data like
> M[1:10,]
           [,1]      [,2]      [,3]      [,4]      [,5]       [,6]
 [1,] 0.8750000 0.5000000 0.5000000 0.3750000 0.6250000 0.00000000
 [2,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
 [3,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
 [4,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
 [5,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
 [6,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
 [7,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
 [8,] 0.9497743 0.7605977 0.2394023 0.7103720 0.2896280 0.00000000
 [9,] 0.0754717 0.7169811 0.0000000 0.3584906 0.9245283 0.28301887
[10,] 0.3870968 0.9354839 0.0000000 0.4516129 0.6129032 0.06451613

where all the columns (1 to 6) are representing all possible pair-wise
combination from four datasets,
like
 cmbn
     [,1] [,2] [,3] [,4] [,5] [,6]
[1,]    1    1    1    2    2    3
[2,]    2    3    4    3    4    4

and all the rows represent different species

so;
> M[1,1]
[1] 0.875    ## is the distance value for species 1 for combination data
pair 1& 2.

Can any body please suggest me what will be the best way to represent these
results in plot?
Thanks a lot in advance,
With best regard,
Suparna

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try 'levelplot' in the lattice package.

On Wed, Jun 10, 2009 at 10:05 AM, suparna mitra <
suparna.mitra@googlemail.com> wrote:
> Hallo R Users,
> Please help
>  I have some distance matrix data like
> > M[1:10,]
>           [,1]      [,2]      [,3]      [,4]      [,5]       [,6]
>  [1,] 0.8750000 0.5000000 0.5000000 0.3750000 0.6250000 0.00000000
>  [2,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
>  [3,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
>  [4,] 0.8928571 1.0000000 0.0000000 0.8928571 0.1071429 0.00000000
>  [5,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
>  [6,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
>  [7,] 1.0000000 0.1304348 0.8695652 0.1304348 0.8695652 0.00000000
>  [8,] 0.9497743 0.7605977 0.2394023 0.7103720 0.2896280 0.00000000
>  [9,] 0.0754717 0.7169811 0.0000000 0.3584906 0.9245283 0.28301887
> [10,] 0.3870968 0.9354839 0.0000000 0.4516129 0.6129032 0.06451613
>
> where all the columns (1 to 6) are representing all possible pair-wise
> combination from four datasets,
> like
>  cmbn
>     [,1] [,2] [,3] [,4] [,5] [,6]
> [1,]    1    1    1    2    2    3
> [2,]    2    3    4    3    4    4
>
> and all the rows represent different species
>
> so;
> > M[1,1]
> [1] 0.875    ## is the distance value for species 1 for combination data
> pair 1& 2.
>
> Can any body please suggest me what will be the best way to represent these
> results in plot?
> Thanks a lot in advance,
> With best regard,
> Suparna
>
>        [[alternative HTML version deleted]]
>
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> PLEASE do read the posting guide
>
http://www.R-project.org/posting-guide.html<http://www.r-project.org/posting-guide.html>
> and provide commented, minimal, self-contained, reproducible code.
>


-- 
Jim Holtman
Cincinnati, OH
+1 513 646 9390

What is the problem that you are trying to solve?

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