shannon: Shannon Index of phenotypic diversity
In msap: Statistical analysis for Methylation-sensitive Amplification Polymorphism data
Description
Usage
Arguments
Details
Value
Author(s)
References
Description
Calculate Shannon Index of phenotypic diversity given a list of binary alleles.
Usage
1
shannon(x)
Arguments
x
A list of binary values or alleles.
Details
The Shannon index of phenotypic diversity, S, derived from the Shannon-Weaver index (Shannon, 1948):
S=sum(p(i)log2(p(i)))
where p_{i} is the frequency of the band presence at the ith marker within the population. This index gives more
weight to the presence than to the absence of bands. This has no real biological support, although it might account for the occurrence of homoplasic absences of bands (Bonin et al., 2007)
Value
The value of the Shannon Index of phenotypic diversity
Author(s)
Andres Perez-Figueroa (anpefi@uvigo.es)
References
Bonin, A., Ehrich, D. and Manel S. 2007. Statistical analysis of amplified fragment length polymorphism data: a toolbox for molecular ecologists and evolucionists. Molecular Ecology 16, 3737-3758.
Shannon, C. E. 1948. A mathematical theory of comunication. Bell System Technical Journal 27, 379-423.
msap documentation built on May 2, 2019, 6:52 p.m.
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Description Usage Arguments Details Value Author(s) References
Description
Calculate Shannon Index of phenotypic diversity given a list of binary alleles.
Usage
1 | shannon(x)
|
Arguments
x |
A list of binary values or alleles. |
Details
The Shannon index of phenotypic diversity, S, derived from the Shannon-Weaver index (Shannon, 1948):
S=sum(p(i)log2(p(i)))
where p_{i} is the frequency of the band presence at the ith marker within the population. This index gives more weight to the presence than to the absence of bands. This has no real biological support, although it might account for the occurrence of homoplasic absences of bands (Bonin et al., 2007)
Value
The value of the Shannon Index of phenotypic diversity
Author(s)
Andres Perez-Figueroa (anpefi@uvigo.es)
References
Bonin, A., Ehrich, D. and Manel S. 2007. Statistical analysis of amplified fragment length polymorphism data: a toolbox for molecular ecologists and evolucionists. Molecular Ecology 16, 3737-3758.
Shannon, C. E. 1948. A mathematical theory of comunication. Bell System Technical Journal 27, 379-423.
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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