gpyramid (version 0.0.1)

util_haplo: Util fuunction to generate haplotype dataframe from raw data.

Description

Util fuunction to generate haplotype dataframe from raw data.

Usage

util_haplo(in_df, target, non_target, hetero, line_cul)

Value

A list of genotype and line names for downstream analysis. This is a list with the following components: * `gene_df1` (`data frame`): One set of haplotype. Values take 1 (target allele) or 0 (non-target). * `gene_df2` (`data frame`): The other set of haplotype. Values take 1 or 0. * `line_id` (`vector`): Line names.

Arguments

in_df

Data frame of raw data.

target

Character of genotype which is the target of gene pyramiding.

non_target

Character of genotype which is not the target of gene pyramiding.

hetero

Character of genotype of heterozygote.

line_cul

Column name containing line identifiers.

Examples

in_df <- data.frame(line = c("CV1", "CV2", "CV3", "CV4", "CV5"),
                    gene1 = c("A", "A", "B", "B", "A"),
                    gene2 = c("B", "A", "A", "B", "H"),
                    gene3 = c("A", "A", "H", "H", "A"),
                    gene4 = c("A", "B", "H", "A", "B"))

util_haplo(in_df, target = "A", non_target = "B", hetero = "H", line_cul = "line")