EvaluateCore (version 0.1.1)

cr.evaluate.core: Coincidence Rate of Range

Description

Compute the Coincidence Rate of Range () diwan_methods_1995,hu_methods_2000EvaluateCore to compare quantitative traits of the entire collection (EC) and core set (CS).

Usage

cr.evaluate.core(data, names, quantitative, selected)

Arguments

data

The data as a data frame object. The data frame should possess one row per individual and columns with the individual names and multiple trait/character data.

names

Name of column with the individual names as a character string

quantitative

Name of columns with the quantitative traits as a character vector.

selected

Character vector with the names of individuals selected in core collection and present in the names column.

Value

The value.

Details

The Coincidence Rate of Range () is computed as follows.

Where, is the range of the th trait in the CS, is the range of the th trait in the EC and is the total number of traits.

References

See Also

wilcox.test

Examples

# NOT RUN {
####################################
# Use data from R package ccChooser
####################################

library(ccChooser)
data("dactylis_CC")
data("dactylis_EC")

ec <- cbind(genotypes = rownames(dactylis_EC), dactylis_EC[, -1])
ec$genotypes <- as.character(ec$genotypes)
rownames(ec) <- NULL
ec[, c("X1", "X6", "X7")] <- lapply(ec[, c("X1", "X6", "X7")],
                                    function(x) cut(x, breaks = 4))
ec[, c("X1", "X6", "X7")] <- lapply(ec[, c("X1", "X6", "X7")],
                                    function(x) factor(as.numeric(x)))
head(ec)

core <- rownames(dactylis_CC)

quant <- c("X2", "X3", "X4", "X5", "X8")
qual <- c("X1", "X6", "X7")

####################################
# EvaluateCore
####################################

cr.evaluate.core(data = ec, names = "genotypes",
                 quantitative = quant, selected = core)


# }