ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes.

ABSTRACT:

Motivation

The estimation of species phylogenies requires multiple loci, since different loci can have different trees due to incomplete lineage sorting, modeled by the multi-species coalescent model. We recently developed a coalescent-based method, ASTRAL, which is statistically consistent under the multi-species coalescent model and which is more accurate than other coalescent-based methods on the datasets we examined. ASTRAL runs in polynomial time, by constraining the search space using a set of allowed 'bipartitions'. Despite the limitation to allowed bipartitions, ASTRAL is statistically consistent.

Results

We present a new version of ASTRAL, which we call ASTRAL-II. We show that ASTRAL-II has substantial advantages over ASTRAL: it is faster, can analyze much larger da

SUBMITTER: Mirarab S 

PROVIDER: S-EPMC4765870 | biostudies-literature | 2015 Jun

REPOSITORIES: biostudies-literature