Renyi: Rényi profiles
In QSutils: Quasispecies Diversity
Description
Usage
Arguments
Value
Author(s)
References
See Also
Examples
Description
Functions to compute the Rényi entropy given a vector of counts
RenyiProfile computes the Rényi number for a set of exponents.
Usage
1
2
Renyi(w, q)
RenyiProfile(w, q = NULL)
Arguments
w
Vector of observed counts or frequencies.
q
Exponent. A single value for Renyi, a vector of values or NULL for
RenyiProfile.
Value
A single value for Renyi. A data frame with exponents and entropies
for RenyiProfile.
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.
Pavoine, S. (2005). Méthodes statistiques pour la mesure de la biodiversité.
UMR CNRS 5558 «Biométrie et Biologie Evolutive».
See Also
Examples
1
2
3
4
5
6
7
8
# A vector of observed counts.
nr<-c(464, 62, 39, 27, 37, 16, 33, 54, 248, 20)
Renyi(nr,2)
RenyiProfile(nr,c(0:4,Inf))
RenyiProfile(nr)
QSutils documentation built on Nov. 8, 2020, 7:42 p.m.
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Description Usage Arguments Value Author(s) References See Also Examples
Description
Functions to compute the Rényi entropy given a vector of counts
RenyiProfile computes the Rényi number for a set of exponents.
Usage
1 2 | Renyi(w, q)
RenyiProfile(w, q = NULL)
|
Arguments
w |
Vector of observed counts or frequencies. |
q |
Exponent. A single value for |
Value
A single value for Renyi. A data frame with exponents and entropies
for RenyiProfile.
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.
Pavoine, S. (2005). Méthodes statistiques pour la mesure de la biodiversité. UMR CNRS 5558 «Biométrie et Biologie Evolutive».
See Also
Examples
1 2 3 4 5 6 7 8 | # A vector of observed counts.
nr<-c(464, 62, 39, 27, 37, 16, 33, 54, 248, 20)
Renyi(nr,2)
RenyiProfile(nr,c(0:4,Inf))
RenyiProfile(nr)
|
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