The locus package provides an efficient variational algorithm for simultaneous variable selection of predictors and associated outcomes based on a sparse multivariate regression model (H. Ruffieux, A. C. Davison, J. Hager, I. Irincheeva, Efficient inference for genetic association studies with multiple outcomes, Biostatistics, 2017). The methods from this package have been used on large genetic datasets from molecular quantitative trait locus (QTL) problems with over 200K single nucleotide polymorphisms (SNPs), hundreds of molecular expression levels and hundreds of samples.
set_hyper, set_init, generate_null, locus, set_blocks, set_cv.
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