heteroZygotTest {detectRUNS} | R Documentation |
Function to check whether a window is (loosely) heterozygous or not
Description
This is a core function within the sliding-window workflow. Parameters on how to consider a window heterozygous are here (maxHom, maxMiss)
Usage
heteroZygotTest(x, gaps, maxHom, maxMiss, maxGap, i, windowSize)
Arguments
x |
vector of 0/1 genotypes (from genoConvert()) |
gaps |
vector of differences between consecutive positions (gaps) in bps |
maxHom |
max n. of homozygous SNP in a heterozygous window |
maxMiss |
max n. of missing in a window |
maxGap |
max distance between consecutive SNP in a window to be still considered a potential run |
i |
index along the genome (genome-vector for each individual) |
windowSize |
size of window (n. of SNP) |
Value
a list: i) TRUE/FALSE (whether a window is heterozygous or NOT); ii) indexes of "opposite and missing" genotype
[Package detectRUNS version 0.9.6 Index]