EpiGEN: an epistasis simulation pipeline.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 32289146.
- Also identified by DOI 10.1093/bioinformatics/btaa245.
- No licence information is recorded for this record.
- Because redistribution is not established, this page shows the abstract only. Follow the links below for the full text.
Abstract
Simulated data are crucial for evaluating epistasis detection tools in genome-wide association studies. Existing simulators are limited, as they do not account for linkage disequilibrium (LD), support limited interaction models of single nucleotide polymorphisms (SNPs) and only dichotomous phenotypes or depend on proprietary software. In contrast, EpiGEN supports SNP interactions of arbitrary order, produces realistic LD patterns and generates both categorical and quantitative phenotypes. EpiGEN is implemented in Python 3 and is freely available at https://github.com/baumbachlab/epigen. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Epistasis, Genetic
- Genome-Wide Association Study