Read and convert phenotype data into TASSEL 5 phenotype objects

Usage

readPhenotype(x, attr = NULL)

Arguments

x

A character string representing the file path to the phenotype data or a data frame containing the phenotype data.

attr

An optional attribute metadata parameter required when x is a data frame. Defaults to NULL.

Value

A phenotype object created from the input data.

Details

• If x is a character string, the function assumes it is a file path and calls readPhenotypeFromFile(x).

• If x is a data frame, the function requires the attr parameter to provide metadata and calls readPhenotypeFromDf(x, attr).

• If x is neither a character string nor a data frame, the function throws an error.

Examples

if (FALSE) { # \dontrun{
# Reading phenotype data from a file
phenotype <- readPhenotype("path/to/phenotype/file.txt")

# Reading phenotype data from a data frame
attrDf <- tibble::tribble(
    ~"col_id",      ~"tassel_attr",
    "taxa_id",      "taxa",
    "plant_height", "data",
    "PC1",          "covariate",
    "yield",        "data",
)
df <- tibble::tribble(
    ~"taxa_id", ~"plant_height", ~"PC1", ~"yield",
    "line_a",   12.3,            0.5,    2,
    "line_b",   22.8,            -1.5,   3,
)

phenotypeDf <- readPhenotype(df, attr = attrDf)
} # }