DRYAD DATA PACKAGE ——————————————————— Gottscho, A.D., Wood, D.A., Vandergast, A.G., Lemos-Espinal, J., Gatesy, J., Reeder, T.W., 2016. Lineage diversification of fringe-toed lizards (Phrynosomatidae: Uma notata complex) in the Colorado Desert: Delimiting species in the presence of gene flow. Molecular Phylogenetics and Evolution, http://dx.doi.org/10.​1016/​j.​ympev.​2016.​09.​008 BEAST Included are input xml files and a summary of results for Bayes Factor Delimitation (BFD, Grummer et al. 2014) and *BEAST (Heled and Drummond 2010) analysis of species trees in BEAST v1.8.1 (Drummond et al. 2012). REFERENCES Drummond, A.J., Suchard, M.A., Xie, D., Rambaut, A., 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29, 1969-1973. Grummer, J.A., Bryson, R.W., Jr., Reeder, T.W., 2014. Species delimitation using Bayes factors: simulations and application to the Sceloporus scalaris species group (Squamata: Phrynosomatidae). Syst. Biol. 63, 119-133. Heled, J., Drummond, A.J., 2010. Bayesian inference of species trees from multilocus data. Mol. Biol. Evol. 27, 570-580.