R: A Package to Test for Multi-Trait Association

# A Package to Test for Multi-Trait Association

## Documentation for package ‘MultiPhen’ version 2.0.4

- DESCRIPTION file
- Code demos. Use demo() to run them.
- Package NEWS
- Package README

## Help Pages

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