CRAN/E | netgwas

netgwas

Network-Based Genome Wide Association Studies

Installation

About

A multi-core R package that contains a set of tools based on copula graphical models for accomplishing the three interrelated goals in genetics and genomics in an unified way: (1) linkage map construction, (2) constructing linkage disequilibrium networks, and (3) exploring high-dimensional genotype-phenotype network and genotype- phenotype-environment interactions networks. 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 considerably larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The 'netgwas' implements the methodological developments in Behrouzi and Wit (2017) doi:10.1111/rssc.12287 and Behrouzi and Wit (2017) doi:10.1093/bioinformatics/bty777.

Citation netgwas citation info

Key Metrics

Version 1.14.3
R ≥ 3.1.0
Published 2024-03-19 201 days ago
Needs compilation? no
License GPL-3
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Maintainer

Maintainer

Pariya Behrouzi

Authors

Pariya Behrouzi

aut / cre

Ernst C. Wit

ctb

Material

Reference manual
Package source

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

netgwas archive

Depends

R ≥ 3.1.0

Imports

Matrix ≥ 1.4-1
igraph
qtl
parallel
methods
glasso
MASS
huge
tmvtnorm

Suggests

testthat

Reverse Imports

netShiny