Searching for Footprints of Selection using "Extended Haplotype
Homozygosity" Based Tests
Description
Population genetic data in form of "Single Nucleotide
Polymorphisms" (SNPs) is often used to identify genomic regions
that have been under recent natural or artificial selection
and might provide clues about the molecular mechanisms of adaptation.
The concept of an "Extended Haplotype Homozygosity" (EHH), introduced by
(Sabeti 2002) , has given rise to several
derived statistics designed for whole genome scans.
The package provides functions to compute three of these,
namely: "iHS" (Voight 2006) for
detecting selection within a single population as well as
"Rsb" (Tang 2007) and
"XP-EHH" (Sabeti 2007) to detect
(differential) selection between two populations.
Various plotting functions are also included to facilitate
visualization and interpretation of these statistics.