R/shapeQTL is an R package to perform statistical analyses to map quantitative trait locus for geometric morphometric data
Geometric morphometrics defines shape as a multivariate trait. Gene pleiotropy on landmark coordinates is the underlying genetic model by definition and multivariate methods are required to map QTL. The package provides Haley-Knott mapping for shape data derived from other R packages: R/geomorph, R/Morpho, R/Momocs or other open source softwares for geometric morphometrics : e.g., Java/MorphoJ, and for genotype probabilities derived from specific packages depending on the type of crosses (for example calc.genoprob from R/qtl for inbred strains).
Install R/shapeQTL from its GitHub repository.
Install devtools package.
install.packages("devtools")Then install R/shapeQTL
require(devtools)
install_github("nnavarro/shapeQTL")