R/rNeighborQTL-package.R

In rNeighborQTL: Interval Mapping for Quantitative Trait Loci Underlying Neighbor Effects

#' @title rNeighbor QTL: quantitative trait loci mapping for neighbor effects
#'
#' @description
#' The "rNeighborQTL" package provides a set of functions to perform a genome scan of neighbor QTL effects.
#' Theoretical background is described in Sato, Takeda & Nagano (2021).
#' See \code{vignette("rNeighborQTL")} for how to use this package.
#' @docType package
#' @name rNeighborQTL-package
#' @author Yasuhiro Sato (\email{sato.yasuhiro.36c@kyoto-u.jp})
#' @details
#' Neighbor QTL is an extended method of single-marker regression.
#' Taking conditional genotype probabilities from \code{r/qtl} package, the \code{rNeighborQTL} package performs an interval mapping of neighbor genotypic identity.
#' Alternative to QTL mapping, \code{rNeighborGWAS} package is also available for genome-wide association studies (GWAS) via CRAN at \url{https://cran.r-project.org/package=rNeighborGWAS}.
#' @references
#' * Sato Y, Yamamoto E, Shimizu KK, Nagano AJ (2021) Neighbor GWAS: incorporating neighbor genotypic identity into genome-wide association studies of field herbivory. Heredity 126:597–614.
#' * Sato Y, Takeda K, Nagano AJ (2021) Neighbor QTL: an interval mapping method for quantitative trait loci underlying plant neighborhood effects. G3; Genes|Genomes|Genetics 11:jkab017.
#' @keywords internal
"_PACKAGE"

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