epistasis-package


A package for reconstructing an underlying network of genomic signatures of high-dimensional epistatic selection from multi-locus genotype data. 
The package is implemented the recent improvement in the analysis of high-dimensional partially observed genotype data Behrouzi and Wit (2016). 
The network captures the conditionally dependent short- and long-range linkage disequilibrium structure of a genomes and reveals aberrant marker-marker 
associations that are due to epistatic selection rather than gametic linkage.


package

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.

epistasis-package: Detecting Epistatic Selection with Partially Observed Genotype Data

Description

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References