hapiFrameSelection: Selection of hetSNPs to form a framework

In Jialab-UCR/Hapi: Inference of Chromosome-length Haplotypes using Genomic Data of Single Gamete Cells

Description

Selection of hetSNPs to form a framework

Usage

hapiFrameSelection(gmt, n = 3)

Arguments

gmt	a dataframe of genotype data of gamete cells
n	a numeric value of the minumum number of gametes with observed genotypes at a locus

Value

a dataframe of genotype data of gamete cells

Author(s)

Ruidong Li

Examples

ref <- rep(0,500)
alt <- rep(1,500)

gmt <- data.frame(gmt1=ref, gmt2=alt, gmt3=ref,
gmt4=ref, gmt5=c(alt[1:250], ref[251:500]),
stringsAsFactors = FALSE)

idx <- sort(sample(seq_len(500), 10, replace = FALSE))

gmt[idx,1] <- NA
gmt[idx,2] <- NA
gmt[idx,3] <- NA

gmtFrame <- hapiFrameSelection(gmt = gmt, n = 3)

Jialab-UCR/Hapi documentation built on May 30, 2019, 11:41 a.m.