RClone (version 1.0.3)

clonal_index: Indices for clonal data

Description

clonal_index computes main genotypic diversity and richness indices.

Usage

clonal_index(data1, vecpop = NULL, listMLL = NULL)

Arguments

data1

a RClone table with one allele per column, haploid or diploid data.

vecpop

vector, option, vecpop indicates the population name of each unit of data1, if data1 contains several populations. If data1 contains only one population, leave vecpop = NULL.

listMLL

option, a custom list of MLL.

Value

a table (one population) or a list of tables (several population) with genotypic indices.

Details

clonal_index returns:

• the number of units N,

• the number of unique genotypes G,

• the clonal diversity index R (Dorken & Eckert 2001; Ellstrand & Roose 1987),

• the Shannon-Wiener index estimator H'' (Pielou 1966),

• the Pielou evenness index J' (Pielou 1975),

• the Simpson complement unbiased D' (Pielou 1969 ; Gini 1912 ; Peet 1974),

• the Simpson complement index V (Hurlbert 1971 ; Fager 1972),

• the reciprocal of Simpson index unbiased Hill (Hurlbert 1971 ; Hill 1973).

References

Arnaud-Haond et al., 2007, Standardizing methods to address clonality in population studies.

See Also

Pareto_index

Examples

# NOT RUN {
data(posidonia)

clonal_index(posidonia)
# }