GiniSimpson {QSutils} | R Documentation |
GiniSimpson calculates the unbiased estimator, GiniSimpsonVar computes Gini-Simpson asymp- totic variance, and GiniSimpsonMVUE calculates the minimum variance unbiased estimator of the Gini-Simpson index.
GiniSimpson(w) GiniSimpsonMVUE(w) GiniSimpsonVar(w)
w |
Vector of observed counts or frequencies. |
A value that corresponds to the Gini-Simpson diversity index.
Mercedes Guerrero-Murillo and Josep Gregori
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.
# A vector of haplotype counts. nr <- c(464, 62, 39, 27, 37, 16, 33, 54, 248, 20) # Gini-Simpson index. GiniSimpson(nr) # Gini-Simpson variance. GiniSimpsonVar(nr) # MVUE Gini-Simpson index. GiniSimpsonMVUE(nr)