epispot is an R package for parallel variational expectation-maximisation in sparse regression with hierarchically-related responses and predictor-level information. A notable application is in the context of molecular quantitative trait locus mapping, with several thousand molecular levels (responses), genetic markers (candidate predictors) and epigenetic annotation marks (predictor-level covariates) and individuals (samples).
H. Ruffieux, B. Fairfax, I. Nassiri, E. Vigorito, C. Wallace, S. Richardson, L. Bottolo. EPISPOT : An epigenome-driven approach for detecting and interpreting hotspots in molecular QTL studies, The American Journal of Human Genetics, 108:1-18, 10.1016/j.ajhg.2021.04.010, 2021.
To install, run the following commands in R:
if(!require(remotes)) install.packages("remotes")
remotes::install_github("hruffieux/epispot")This software uses the GPL v3 license, see LICENSE. Authors and copyright are provided in DESCRIPTION.
To report an issue, please use the epispot issue tracker at github.com.