CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data. - Steve Davis 002; James B. Pettengill; Yan Luo; Justin Payne; Al Shpuntoff; Hugh Rand; Errol Strain (PeerJ Comput. Sci., 2015)

TreeToReads - a pipeline for simulating raw reads from phylogenies. - Emily Jane McTavish; James B. Pettengill; Steve Davis 002; Hugh Rand; Errol Strain; Marc Allard; Ruth E. Timme (BMC Bioinform., 2017)

vcftoolz: a Python package for comparing and evaluating Variant Call Format files. - Steve Davis 002 (J. Open Source Softw., 2019)