wilcox.evaluate.core: Wilcoxon Rank Sum Test

In EvaluateCore: Quality Evaluation of Core Collections

Wilcoxon Rank Sum Test

Description

Compare the medians of quantitative traits between entire collection (EC) and core set (CS) by Wilcoxon rank sum test or Mann-Whitney-Wilcoxon test or Mann-Whitney U test \insertCitewilcoxon_individual_1945,mann_test_1947EvaluateCore.

Usage

wilcox.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

Trait	The quantitative trait.
Count	The accession count (excluding missing data).
EC_Med	The median value of the trait in EC.
CS_Med	The median value of the trait in CS.
Wilcox_pvalue	The p value of the Wilcoxon test for equality of medians of EC and CS.
Wilcox_significance	The significance of the Wilcoxon test for equality of medians of EC and CS.

References

\insertAllCited

See Also

wilcox.test

Examples

data("cassava_CC")
data("cassava_EC")

ec <- cbind(genotypes = rownames(cassava_EC), cassava_EC)
ec$genotypes <- as.character(ec$genotypes)
rownames(ec) <- NULL

core <- rownames(cassava_CC)

quant <- c("NMSR", "TTRN", "TFWSR", "TTRW", "TFWSS", "TTSW", "TTPW", "AVPW",
           "ARSR", "SRDM")
qual <- c("CUAL", "LNGS", "PTLC", "DSTA", "LFRT", "LBTEF", "CBTR", "NMLB",
          "ANGB", "CUAL9M", "LVC9M", "TNPR9M", "PL9M", "STRP", "STRC",
          "PSTR")

ec[, qual] <- lapply(ec[, qual],
                     function(x) factor(as.factor(x)))

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

EvaluateCore documentation built on April 22, 2026, 9:07 a.m.