├── .gitignore ├── README.md ├── datasets ├── Anderson_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Ballesteros_2019 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Becker_2016 │ ├── Find Results │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Bergsten_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Borowiec_2015 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Branstetter_2017 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Broughton_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Brown_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Cannon_2016_aa │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Cannon_2016_dna │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Chen_2015 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Cognato_2001 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Crawford_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Day_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Devitt_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Dornburg_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Faircloth_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Fong_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Horn_2014 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Irisarri_2017 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Jarvis_2015 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Kawahara_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Lartillot_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Leache_2015 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Looney_2016 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── McCormack_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Meiklejohn_2016 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Misof_2014 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Moyle_2016 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Murray_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Near_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016a │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016b │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016c │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016d │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016e │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Nguyen_2016f │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Oaks_2011 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Prebus_2017 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Pyron_2011 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Ran_2018_aa │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Ran_2018_dna │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Reddy_2017 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Richart_2015 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Rightmyer_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Sauquet_2011 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Seago_2011 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Sharanowski_2011 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Shen_2018 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Siler_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Smith_2014 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Tolley_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Unmack_2013 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Varga_2019 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Wainwright_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Whelan_2017 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Wood_2012 │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014a │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014b │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014c │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014d │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014e │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014f │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014g │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Worobey_2014h │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── Wu_2018_aa │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt └── Wu_2018_dna │ ├── README.yaml │ ├── alignment.nex-seq-summary.txt │ └── alignment.nex-summary.txt ├── 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