cr.evaluate.core {EvaluateCore} | R Documentation |

Compute the Coincidence Rate of Range
(*CR*)
(Diwan et al. 1995; Hu et al. 2000) to compare
quantitative traits of the entire collection (EC) and core set (CS).

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

`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 |

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

\[CR = \left ( \frac{1}{n} \sum_{i=1}^{n} \frac{R_{CS_{i}}}{R_{EC_{i}}} \right ) \times 100\]Where, \(R_{CS_{i}}\) is the range of the \(i\)th trait in the CS, \(R_{EC_{i}}\) is the range of the \(i\)th trait in the EC and \(n\) is the total number of traits.

The \(CR\) value.

Diwan N, McIntosh MS, Bauchan GR (1995).
“Methods of developing a core collection of annual *Medicago* species.”
*Theoretical and Applied Genetics*, **90**(6), 755–761.

Hu J, Zhu J, Xu HM (2000).
“Methods of constructing core collections by stepwise clustering with three sampling strategies based on the genotypic values of crops.”
*Theoretical and Applied Genetics*, **101**(1), 264–268.

```
####################################
# 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)
```

[Package *EvaluateCore* version 0.1.2 Index]