ABLE: blockwise site frequency spectra for inferring complex population histories and recombination.

Abstract:

:We introduce ABLE (Approximate Blockwise Likelihood Estimation), a novel simulation-based composite likelihood method that uses the blockwise site frequency spectrum to jointly infer past demography and recombination. ABLE is explicitly designed for a wide variety of data from unphased diploid genomes to genome-wide multi-locus data (for example, RADSeq) and can also accommodate arbitrarily large samples. We use simulations to demonstrate the accuracy of this method to infer complex histories of divergence and gene flow and reanalyze whole genome data from two species of orangutan. ABLE is available for download at https://github.com/champost/ABLE .

journal_name

Genome Biol

journal_title

Genome biology

authors

Beeravolu CR,Hickerson MJ,Frantz LAF,Lohse K

doi

10.1186/s13059-018-1517-y

subject

Has Abstract

pub_date

2018-09-25 00:00:00

pages

145

issue

1

eissn

1474-7596

issn

1474-760X

pii

10.1186/s13059-018-1517-y

journal_volume

19

pub_type

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