Shannon {QSutils} | R Documentation

## Set of functions to compute Shannon entropy

### Description

`Shannon` computes the Shannon entropy. `NormShannon` returns the normalized Shannon entropy. `ShannonVar` computes the Shannon entropy asymptotic variance. `NormShannonVar` computes the normalized Shannon entropy asymptotic variance.

### Usage

    Shannon(w)
    ShannonVar(w)
    NormShannon(w)
    NormShannonVar(w)

### Arguments

`w` | Vector of observed counts or frequencies.

### Value

A single value with the result of the computations.

### Author(s)

Mercedes Guerrero-Murillo and Josep Gregori

### References

Gregori J, Perales C, Rodriguez-Frias F, Esteban JI, Quer J, Domingo E. Viral quasispecies complexity measures. Virology. 2016 Jun;493:227-37. doi: 10.1016/j.virol.2016.03.017. Epub 2016 Apr 6. Review. PubMed PMID: 27060566.

Gregori J, Salicrú M, Domingo E, Sanchez A, Esteban JI, Rodríguez-Frías F, Quer J. Inference with viral quasispecies diversity indices: clonal and NGS approaches. Bioinformatics. 2014 Apr 15;30(8):1104-1111. Epub 2014 Jan 2. PubMed PMID: 24389655.

### Examples

    # Create a vector of observed counts.
    nr<-c(464, 62, 39, 27, 37, 16, 33, 54, 248, 20)

    # Shannon entropy.
    Shannon(nr)

    # Shannon entropy variance.
    ShannonVar(nr)

    # Normalized Shannon entropy.
    NormShannon(nr)

    # Normalized Shannon entropy variance.
    NormShannonVar(nr)

[Package QSutils version 1.2.0 Index]