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.


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0.0.1-1 by Pariya Behrouzi, 4 years ago

Browse source code at

Authors: Pariya Behrouzi , Danny Arends and Ernst C. Wit

Documentation:   PDF Manual  

GPL-3 license

Imports methods

Depends on Matrix, glasso, tmvtnorm, igraph, parallel

See at CRAN