geno_baf_rratio: Genotype with kmeans using three clusters

In gsrc: Genome Structure Rearrangement Calling in Genomes with High Synteny

Description

Genotype with kmeans using three clusters

Usage

geno_baf_rratio(dat, delthresh = 0.7, drop = FALSE, corr = FALSE)

Arguments

dat	List object, containing at least two matrices "intensity" and "theta". Or matrix with raw data.
delthresh	Numeric between 0 and 1. Intensity threshold for deletions.
drop	Logical, if TRUE theta and intensity values are removed to save memory.
corr	Logical, if TRUE all sample medians are corrected to 0.

Value

Genotypes

Examples

if(require(brassicaData)){
data("raw_napus", package = "brassicaData", envir = environment())

dat <- intens_theta(raw_napus)
dat <- remove_suffix(dat, "_Grn")
dat <- geno_baf_rratio(dat, delthresh = 11)
}

Example output

Loading required package: brassicaData
Warning message:
In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'brassicaData'

gsrc documentation built on May 30, 2017, 4:16 a.m.