R help - Oct 2007 - problem with lower, upper triangles and diagonal

Hello R user!

I have again a problem and sometimes I have the feeling that I will  
never learn to solve my problems by myself.
But I found no solution in the searchable archieves or somewhere else.

I have a square data.frame with distance values. In this special case  
the upper and the lower triangle are not the same and the diagonal is  
not containing zero.

I need first the lower triangle including the diagonal (but not as  
zero) to perform a Manteltest in comparison with another triangle.

I tried first as.dist and it worked very well for the lower triangle  
but then I became aware of the diagonal handling as zero.
I found no option to get only the upper triangle including the  
diagonal in as.dist.

Secondly i need also the upper triangle including the diagonal to  
perform a Manteltest.

Could anybody help me with this problem.

I appologise in advance, because I was  to stupid to find the  
solution by myself.

Thanks a lot.

Regards

Birgit

Birgit Lemcke
Institut f?r Systematische Botanik
Zollikerstrasse 107
CH-8008 Z?rich
Switzerland
Ph: +41 (0)44 634 8351
birgit.lemcke at systbot.uzh.ch

Hello Fernando,

I have two problems with you suggestion:

First what I get back if I use lowerTriangle is this:

(f2.low<-lowerTriangle(f2, diag = TRUE))
[1] 0 1 1 1 1 0 1 0 0 1 1 1 1 1 0

But I need a triangle and I need an object of class dist to use  
afterwards the mantel.rtest function.

So I think I need a possibility in as.dist to get the upper and lower  
triangle with the original diagonal values.

But thanks for your help.

Regards

Birgit



Am 09.10.2007 um 16:41 schrieb F.Tusell:
> Birgit,
>
> Seems to me that
>
>         upperTriangle
>         lowerTriangle
>
> in package gdata may be an answer to you problems. Best, ft.
> -- 
> Fernando TUSELL                                e-mail:
> Departamento de Econometr?a y Estad?stica       fernando.tusell at ehu.es
> Facultad de CC.EE. y Empresariales
> Universidad del Pa?s Vasco                     Tel:   (+34)94.601.3733
> Avenida Lendakari Aguirre, 83                  Secr:  (+34)94.601.3740
> E-48015 BILBAO                                 Fax:   (+34)94.601.3754
> (Spain)                              http://www.et.bs.ehu.es/~etptupaf
> ----------------------------------------------------------------------
>
>
>
>

Birgit wrote:

Hello R user!

I have again a problem and sometimes I have the feeling that I will
never learn to solve my problems by myself.
But I found no solution in the searchable archieves or somewhere else.

I have a square data.frame with distance values. In this special case
the upper and the lower triangle are not the same and the diagonal is
not containing zero.

I need first the lower triangle including the diagonal (but not as
zero) to perform a Manteltest in comparison with another triangle.

I tried first as.dist and it worked very well for the lower triangle
but then I became aware of the diagonal handling as zero.
I found no option to get only the upper triangle including the
diagonal in as.dist.

Secondly i need also the upper triangle including the diagonal to
perform a Manteltest.

Could anybody help me with this problem.

I appologise in advance, because I was  to stupid to find the
solution by myself.

Thanks a lot.

Regards

Birgit

Birgit Lemcke
Institut f?r Systematische Botanik
Zollikerstrasse 107
CH-8008 Z?rich
Switzerland
Ph: +41 (0)44 634 8351
birgit.lemcke at systbot.uzh.ch