Package: netgwas
Type: Package
Title: Network-Based Genome Wide Association Studies
Version: 1.8.1
Author: Pariya Behrouzi <https://orcid.org/0000-0001-6762-5433> and Ernst C. Wit
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>
Depends: R (>= 3.1.0)
Imports: Matrix, igraph, qtl, parallel, methods, glasso, MASS, RBGL,
        huge,tmvtnorm
Suggests: testthat
Description: A multi-core R package that contains a set of tools based on undirected graphical
             models for accomplishing three important and interrelated goals in genetics: (1) 
			 linkage map construction, (2) reconstructing intra- and inter-chromosomal conditional
			 interactions (linkage disequilibrium) networks, and (3) exploring high-dimensional 
			 genotype-phenotype network and genotype-phenotype-environment interactions network. 
			 We use conditional independence relationships between variables. 
			 The netgwas package can deal with biparental inbreeding and outbreeding species with
			 any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes),
			 tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where 
			 number of variables p is larger than number of sample sizes (p >> n). The computations 
			 is memory-optimized using the sparse matrix output. The package is implemented the recent
			 developments in Behrouzi and Wit (2017) <doi:10.1111/rssc.12287> and Behrouzi and Wit (2017)
			 <arXiv:1710.01063>. 
             NOTICE proper functionality of 'netgwas' requires that the 'RBGL' package is installed from 'bioconductor'; for installation instruction please refer to the 'RBGL' web page given below.
License: GPL-3
Date: 2019-02-17
NeedsCompilation: no
Packaged: 2019-02-16 23:02:49 UTC; behro001
Repository: CRAN
Date/Publication: 2019-02-16 23:30:02 UTC
