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bacteria

Genomes of 43 Bacteria

Description

bacteria is a list containing 43 species and genomic informations : codons, amino acid and bases.

Usage

data(bacteria)

Format

This list contains the following objects:

code

is a factor with the amino acid names for each codon.

espcodon

is a data frame 43 species 64 codons.

espaa

is a data frame 43 species 21 amino acid.

espbase

is a data frame 43 species 4 bases.

Source

Data prepared by J. Lobry Jean.Lobry@univ-lyon1.fr starting from https://www.jcvi.org/.

Examples

data(bacteria)
names(bacteria$espcodon)
names(bacteria$espaa)
names(bacteria$espbase)
sum(bacteria$espcodon) # 22,619,749 codons

if(adegraphicsLoaded()) {
  g <- scatter(dudi.coa(bacteria$espcodon, scann = FALSE), 
    posi = "bottomleft")
} else {
  scatter(dudi.coa(bacteria$espcodon, scann = FALSE), 
    posi = "bottom")
}
ade4

Analysis of Ecological Data: Exploratory and Euclidean Methods in Environmental Sciences

v1.7-16
GPL (>= 2)
Authors
Stéphane Dray <stephane.dray@univ-lyon1.fr>, Anne-Béatrice Dufour <anne-beatrice.dufour@univ-lyon1.fr>, and Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>, with contributions from Thibaut Jombart, Sandrine Pavoine, Jean R. Lobry, Sébastien Ollier, Daniel Borcard, Pierre Legendre, Stéphanie Bougeard and Aurélie Siberchicot. Based on earlier work by Daniel Chessel.
Initial release

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