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 |
| macOS binaries: | r-release: epistasis_0.0.1-1.tgz, r-oldrel: epistasis_0.0.1-1.tgz |
| Old sources: | epistasis archive |
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