hruffieux / epispot

epispot R package - Annotation-driven approach for large-scale joint regression with multiple responses

EPISPOT – Annotation-driven approach for large-scale joint regression with multiple responses

Overview

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.

Installation

To install, run the following commands in R:

if(!require(remotes)) install.packages("remotes")
remotes::install_github("hruffieux/epispot")

License and authors

This software uses the GPL v3 license, see LICENSE. Authors and copyright are provided in DESCRIPTION.

Issues

To report an issue, please use the epispot issue tracker at github.com.