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rNeighborQTL

The "rNeighborQTL" package provides a set of functions to perform a genome scan of neighbor QTL effects.

Installation

CRAN version is available at https://cran.r-project.org/package=rNeighborQTL.
To install the deveper version via GitHub, run devtools::install_github("yassato/rNeighborQTL", repo="master").

Dependency

Note that the rNeighborQTL requires the following R packages.

  • gaston
  • parallel
  • qtl

Release Note

version 1.1.2 (developer version): rebuild using R version 4.0.3; citations updated.
version 1.1.1 (CRAN release version): partial PVEs separated in calc_PVEnei(); plot_nei() refined.
version 1.1.0: calc_neiprob(), eff_neighbor(), scan_neighbor() refactored.
version 1.0.0: Initial version registered in CRAN.

References

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 https://doi.org/10.1093/g3journal/jkab017