njplot: Phylogeny and trait of bacteria

Description Usage Format Source References Examples

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

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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

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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))

ade4 documentation built on May 2, 2019, 5:50 p.m.

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