[phylocom-user] diagonals not zero in distance matrix

Carmen Palacios carmen.palacios at univ-perp.fr
Sun Nov 21 12:44:46 PST 2010


Dear Phylocom Users
I have a question regarding comdist and comdistnt, my distance matrices 
do not have zero in the diagonals but the results obtained otherwise 
look pretty ok, e.g. when I do an MSN the relationships among samples 
are as I expected.

Is then normal that diagonals are not zero?

Here is an exemple of an output parwise distance matrix:

#ObservedComdistNT
.    CocoPac    FicPac    FirCalIN    FirCalOUT    MangPac    OakMed   
  PinPac
CocoPac    0.026342    0.090682    0.010007    0.031678    0.035563   
  0.094719    0.035288
FicPac    0.090682    0.044107    0.091829    0.077708    0.103286   
  0.047043    0.104431
FirCalIN    0.010007    0.091829    0.034220    0.022336    0.047053   
  0.092373    0.045941
FirCalOUT    0.031678    0.077708    0.022336    0.035560    0.056896   
  0.080043    0.066525
MangPac    0.035563    0.103286    0.047053    0.056896    0.047319   
  0.102517    0.042395
OakMed    0.094720    0.047043    0.092373    0.080043    0.102517   
  0.028590    0.104545
PinPac    0.035288    0.104431    0.045941    0.066525    0.042395   
  0.104545    0.041680

Thanks much for any inputs.

Sincerely,

-- 
Carmen...

-- 

     X   Carmen Palacios de la Cruz, PhD
    / }   Maître de Conférences
   { /   UMR 5244 CNRS-EPHE-UPVD
    X    Laboratoire de Biologie et d'Ecologie Tropicale et Méditerranéenne
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