GeneNetworkAPI.jl

Julia package for interfacing with the GeneNetwork web service

LiteQTL.jl

Julia package for whole genome eQTL scans near real-time with a GPU option

FlxQTL.jl

Julia package for multivariate linear mixed model genome scans

matrix linear models

Jane Liang has written three interconnected packages for implementing matrix linear models in Julia

FaSTLMM.jl

Julia package for Factored Spectrally Transformed Linear Mixed Models used for association mapping in genetically structured populations

R/qtlCurve

R package for genetic analysis of function-valued phenotypes.

R/qtlDesign

R package for the design of QTL experiments.

Matlab/pseudomarker

Matlab package for analysis of QTL experiments.

github

Github is a software code repository and network. It supports code versioned using Git. See my public repositories

R/qtl

R package for the analysis of QTL experiments by Karl Broman.