Supplemental Data for Improved modelling of compositional heterogeneity reconciles phylogenomic conflicts among lacewings

This Readme file summarizes the resultant files of our phylogenomic analyses deposited in the Science Data Bank repository of the paper:Improved modelling of compositional heterogeneity reconciles phylogenomic conflicts among lacewingsThe results of our phylogenomic analyses are given in two root folders, corresponding to the three previously published studies: Vasilikopoulos et al. (2020) and Winterton et al. (2018).1-reanalyses of Vasilikopoulos et al. 2020: this folder includes two folders, showing results of phylogenomic analyses of subsampled transcriptomic matrices of Vasilikopoulos et al. (2020). iqtree-LG4X+R-Matrix A-BMGE_BLOSUM62 -h0.1-0.4: 49-taxa matrix (trimmed using BMGE, setting: BLOSUM62 -h 0.1:0.4) under the LG4X+R model in IQ-Tree.phylobayes-CAT-GTR-Matrix A-BMGE_BLOSUM62 -h0.1-0.4: 49-taxa matrix (trimmed using BMGE, setting: BLOSUM62 -h 0.1:0.4) under the CAT-GTR model in PhyloBayes.2-reanalyses of Winterton et al. 2018: this folder includes three folders, showing results of both Bayesian and Maximum Likelihood analyses of AHE (nucleotide and amino acid) datasets of Winterton et al. (2018) and model testing.  NT: this folder includes two folders, showing results of Bayesian analyses of AHE nucleotide (NT) datasets of Winterton et al. (2018).  1-phylobayes-cat-gtr-137-taxa-nt: 137-taxa matrix under the CAT-GTR model in PhyloBayes.2-phylobayes-cat-gtr-133-taxa-nt-rogue taxa removed: 133-taxa matrix under the CAT-GTR model in PhyloBayes. AA: this folder includes three folders, showing results of Bayesian analyses of AHE amino acid (AA) dataset of Winterton et al. (2018).  3-iqtree-LG4X+R-137taxa: 137-taxa matrix under the LG4X+R model in IQ-Tree.4-iqtree-LG+C60-137taxa: 137-taxa matrix under the LG+C60 model in IQ-Tree.5-phylobayes-CAT-GTR-137taxa-focal tree: 137-taxa AA matrix under the CAT-GTR model in PhyloBayes; it is our focal tree, shown as Fig.1 of the paper.Model Test [based on AA dataset]: model testing of the AHE amino acid dataset of Winterton et al. (2018) using PhyloBayes.