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 |
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