PT  - JOURNAL ARTICLE
AU  - Bastian Pfeifer
AU  - Durrell D. Kapan
TI  - Estimates of Introgression as a Function of Pairwise Distances
AID  - 10.1101/154377
DP  - 2017 Jan 01
TA  - bioRxiv
PG  - 154377
4099  - http://biorxiv.org/content/early/2017/06/23/154377.short
4100  - http://biorxiv.org/content/early/2017/06/23/154377.full
AB  - We introduce a new method to detect introgressed loci by combining two widely used statistics: dxy (the average pairwise nucleotide diversity between population x and y) and the four-taxon Patterson’s D statistic. The result is a statistic that takes into account genetic distance across possible topologies named the Bdf and is designed to detect and at the same time to quantify introgression. We also relate this new method to the recently published fd estimate and incorporate all statistics into the powerful genomics R-package PopGenome. The updated PopGenome version is freely available on CRAN. The supplement material contains a wide range of simulation studies and a detailed manual how to perform the statistics within the PopGenome framework.