Package: MultiPhen 2.0.4

Lachlan Coin

MultiPhen: A Package to Test for Multi-Trait Association

Performs genetic association tests between SNPs (one-at-a-time) and multiple phenotypes (separately or in joint model).

Authors:Lachlan Coin [aut, cre], Paul O'Reilly [aut], Yotsawat Pompyen [aut], Clive Hoggart [aut], Federico Calboli [aut]

# Install 'MultiPhen' in R:

install.packages('MultiPhen', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

pheno - A dummy phenotype dataset that provides an example of the input phenotype data used by the package
snps - A dummy snp dataset that provides an example of the input snp data used by the package
snps.imputed - Imputed SNP dataset

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

Last updated from:2acf5f436b. Checks:6 OK. Indexed: yes.

Target	Result	Time
linux-devel	OK	151
source / vignettes	OK	180
linux-release	OK	136
windows-devel	OK	119
windows-release	OK	112
wasm-release	OK	100

Help page	Topics
MultiPhen, a package for the genetic association testing of multiple phenotypes	MultiPhen-package MultiPhen
A function for the genetic association testing of multiple phenotypes	mPhen
A function for the genetic association testing of multiple phenotypes	mPhen.assoc
Sparse canonical correlation analysis	mPhen.cca
Defines and modifies options.	mPhen.defineOptions
Retrieves default mPhen options, and descriptions.	mPhen.options
Plots correlation between phenotype values conditional on genotype	mPhen.plotCorrelation
Prepare phenotype data for analysis	mPhen.preparePheno
Open, and read from a read connection to a genotype file	mPhen.readGenotypes
Read and merge phenotype files	mPhen.readPhenoFiles
Generates a covariance matrix.	mPhen.sampleCovar
Sample genotypes	mPhen.sampleGeno
Simulates phenotypes according to a correlation structure.	mPhen.simulate
Prepares output files and plots from MultiPhen results	mPhen.writeOutput
A dummy phenotype dataset that provides an example of the input phenotype data used by the package	pheno
A function to read (small) binary PLINK binary files in a R session	read.plink
A dummy snp dataset that provides an example of the input snp data used by the package	snps
Imputed SNP dataset	snps.imputed