Data from: Accounting for uncertainty in gene tree estimation: summary-coalescent species tree inference in a challenging radiation of Australian lizards

concatenated dataset used for RAxML analysisConcatenated alignment of the complete dataset (1361 loci) and the inferred maximum likelihood RAxML tree (100 tree searches, 1000 bootstrap replicates)RAxML.tar.gzAlignmentsAll 1852 loci (contains both complete and incomplete, up to 1 species missing, alignments)1852_exon_cap_alignments.tar.gzASTRAL complete dataset, random locus subsetsThe ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were randomly (i.e. not ranked by Tree Certainty score) selected.ASTRAL_0_indiv_miss_allowed_RANDOM.tar.gzASTRAL complete dataset, ranked locus subsetsThe ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were ranked (i.e. ranked by Tree Certainty score) selected.ASTRAL_0_indiv_miss_allowed_RANKED.tar.gzASTRAL incomplete dataset, random locus subsetsThe ASTRAL input and output for the summary-coalescent species tree analysis based on the incomplete dataset. Locus subsets were randomly (i.e. not ranked by Tree Certainty score) selected.ASTRAL_1_indiv_miss_allowed_RANDOM.tar.gzASTRAL incomplete dataset, ranked locus subsetsThe ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were ranked (i.e. ranked by Tree Certainty score) selected.ASTRAL_1_indiv_miss_allowed_RANKED.tar.gzSupplementary_Table_1Information on individuals used in the study and sequencing successSupplementary figuresSupplementary figures in order and as described in manuscriptsupp_figures_V2.pdf