epistasis: Detecting Epistatic Selection with Partially Observed Genotype Data

An efficient multi-core package to reconstruct an underlying network of genomic signatures of high-dimensional epistatic selection from partially observed genotype data. The phenotype that we consider is viability. The network captures the conditional dependent short- and long-range linkage disequilibrium structure of genomes and thus reveals aberrant marker-marker associations that are due to epistatic selection. We target on high-dimensional genotype data where number of variables (markers) is larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output.

Version: 0.0.1-1
Depends: R (≥ 3.1.0), Matrix, glasso, tmvtnorm, igraph, parallel
Imports: methods
Published: 2016-11-23
Author: Pariya Behrouzi, Danny Arends and Ernst C. Wit
Maintainer: Pariya Behrouzi <pariya.behrouzi at gmail.com>
License: GPL-3
NeedsCompilation: no
CRAN checks: epistasis results


Reference manual: epistasis.pdf
Package source: epistasis_0.0.1-1.tar.gz
Windows binaries: r-devel: epistasis_0.0.1-1.zip, r-release: epistasis_0.0.1-1.zip, r-oldrel: epistasis_0.0.1-1.zip
OS X El Capitan binaries: r-release: epistasis_0.0.1-1.tgz
OS X Mavericks binaries: r-oldrel: epistasis_0.0.1-1.tgz
Old sources: epistasis archive


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