R: Phylogeny and trait of bacteria

njplot {ade4} | R Documentation

## Phylogeny and trait of bacteria

### Description

This data set describes the phylogeny of 36 bacteria as reported by Perrière and Gouy (1996). It also gives the GC rate corresponding to these 36 species.

### Usage

    data(njplot)

### Format

`njplot` is a list containing the 2 following objects:

tre

  is a character string giving the fission tree in Newick format.

tauxcg

  is a numeric vector that gives the CG rate of the 36 species.

### Source

Data were obtained by Manolo Gouy manolo.gouy@univ-lyon1.fr

### References

Perrière, G. and Gouy, M. (1996) WWW-Query : an on-line retrieval system for biological sequence banks. Biochimie, 78, 364–369.

### Examples

    data(njplot)
    njplot.phy <- newick2phylog(njplot$tre)
    par(mfrow = c(2,1))
    tauxcg0 <- njplot$tauxcg - mean(njplot$tauxcg)
    symbols.phylog(njplot.phy, squares = tauxcg0)
    symbols.phylog(njplot.phy, circles = tauxcg0)
    par(mfrow = c(1,1))

[Package ade4 version 1.7-16 Index]