quantifySNPs: Simple quantifySNPs function.

In stnava/ANTsR: ANTs in R: Quantification Tools for Biomedical Images

Simple quantifySNPs function.

Description

quantifySNPs converts trinary snps to frequency data

Usage

quantifySNPs(
  snps,
  freqthresh = 0.1,
  shiftit = FALSE,
  replaceWithF = TRUE,
  traitvecin = NA,
  trainvec = NA
)

Arguments

snps	input matrix
freqthresh	remove snps below this frequency
shiftit	shift the snps to smooth the estimate
replaceWithF	replaces snps with frequency values
traitvecin	map snps to trait vector
trainvec	defines training data

Value

matrix is output

Author(s)

Avants BB

Examples

mat <- matrix(c(0, 1, 2, 0, 0, 1, 2, 2, 2), ncol = 3)
wmat <- quantifySNPs(mat, freqthresh = 0)

stnava/ANTsR documentation built on April 16, 2024, 12:17 a.m.