reGenotyper (version 1.2.0)

tMatFunction: computing t statistics for each phentoype at each marker

Description

A subfunction used by main function to compute the t statistic for each phenotype at each marker.

Usage

tMatFunction(mytrait, mygt, fileName = "")

Arguments

mytrait

phenotype data: a nTrait-by-nSample matrix

mygt

genotype data: a nMarker-by-nSample matrix with two allels being 0 and 1 (or A and B) or three allels being 0, 0.5 and 1 (or, A, H, and B), where 0.5 (or H) represents heterozygous allele.

fileName

name for temporary output file during computing process. Default=NULL

Value

a matrix with nTrait x nMarker with t.statistics

References

Li Y. et al, reGenotyper: detecting mislabeled samples in genetic data (submitted). Shabalin A. A., Matrix eQTL: ultra fast eQTL analysis via large matrix operations, Bioinformatics (2012) 28 (10): 1353-1358.

See Also

reGenotyper

Examples

  data(phenotype)
  data(genotype)
  t.mat <- tMatFunction(phenotype, genotype, fileName = "test")