Test to see if two populations are fixed at a given locus
This script compares two percent allele frequencies and reports TRUE if they represent a fixed difference, FALSE otherwise.
is.fixed(s1, s2, tloc = 0)
s1 |
– percentage SNP allele or sequence tag frequency for the first population [required] |
s2 |
– percentage SNP allele or sequence tag frequency for the second population [required] |
tloc |
– threshold value for tolerance in when a difference is regarded as fixed [default 0] |
A fixed difference at a locus occurs when two populations share no alleles, noting that SNPs are biallelic (ploidy=2). Tollerance in the definition of a fixed difference is provided by the t parameter. For example, t=0.05 means that SNP allele frequencies of 95,5 and 5,95 percent will be reported as fixed (TRUE).
TRUE (fixed difference) or FALSE (alleles shared) or NA (one or both s1 or s2 missing)
Arthur Georges (bugs? Post to https://groups.google.com/d/forum/dartr)
is.fixed(s1=100, s2=0, tloc=0) is.fixed(96, 4, tloc=0.05)
Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.