ASTRAL

The ASTRAL tool is used for estimating an unrooted species tree given a set of unrooted gene trees. To do so, it takes a set of unrooted gene trees and searches for the species tree with the maximum shared induced quartet trees. Each model generated is statistically consistent under the multi-species coalescent model and grows, at most, linearly by the number of species and genes.

The main input for ASTRAL is a set of unrooted gene trees in Newick format, and it will return an unrooted species tree. Note it is recommended that you contract very low support branches (e.g. those with less than 10% bootstrap support). The input file should have one species per line where the species name differs from the individual's name. ASTRAL only estimates branch lengths for species in which more than one individual is supplied. Branch lengths are reported in coalescent units and are a direct measure of the amount of discordance in the gene trees.

For additional information, please see the ASTRAL documentation.

ml biocontainers astral-tree
astral -i song_mammals.424.gene.tre -o song_mammles.tre

Parallel Capabilities: Single core only.