permuteAllelesInGenosDose: Genotypes
In timflutre/rutilstimflutre: Timothee Flutre's personal R code

permuteAllelesInGenosDose

R Documentation

Genotypes

Permute alleles in genotypes once alleles have been permuted in the corresponding haplotypes.

permuteAllelesInGenosDose(X, snps.toperm, verbose = 0)

`X`	matrix of bi-allelic SNP genotypes encoded, for each SNP, in number of copies of its second allele, i.e. as allele doses in 0,1,2, with genotypes in rows and SNPs in columns; the "second" allele is arbitrary, it can be the minor or the major allele
`snps.toperm`	vector of SNP identifiers corresponding to the SNPs to which allele permutation will be performed (column names of `X`)
`verbose`	verbosity level (0/1)

matrix of genotypes

Timothee Flutre