ALE reconciliation files

Reconciliation of gene families for the 24 species genomic datasets ml_reconciliations.tar.gz - ALE Maximum Likelihood reconciliations of gene families Trees.tar.xz - ML tree files for all orthogroups ALE_objects.tar.gz - ALE objects generated from tree files alternative_root_trees.tar.gz - Alternative topologies used to test the likelihood of different root positions dated_genome_tree.tre - dated species phylogeny against which gene trees were reconciled alternartive_root_trees.tar.gz - alternative root positions tested using ALE genome_alignment.phy - concatenated sequence alignment used to infer unrooted topology and divergence times genome_set_input.txt - treefile with fossil calibration information for divergence time estimation genome_dated_posterior.tre - treefile containing divergence times of genome-only phylogeny genome_dated_posterior.txt - parameter output of divergence time analysis in.BV - estimated branch lengths and Hessian matrix for divergence time analysis WEREWOLF_loss.newick.txt - gene family phylogeny for WEREWOLF WOX4_loss.newick.txt - gene family phylogeny for WOX4 STM_loss.newick.txt - gene family phylogeny for STM