DNA assembly with gaps (Dawg): simulating sequence evolution. - Reed A. Cartwright (Bioinform., 2005)

Logarithmic gap costs decrease alignment accuracy. - Reed A. Cartwright (BMC Bioinform., 2006)

Ngila: global pairwise alignments with logarithmic and affine gap costs. - Reed A. Cartwright (Bioinform., 2007)

PICS-Ord: Unlimited Coding of Ambiguous Regions by Pairwise Identity and Cost Scores Ordination. - Robert K. Luecking; Brendan P. Hodkinson; Alexandros Stamatakis; Reed A. Cartwright (BMC Bioinform., 2011)

A composite genome approach to identify phylogenetically informative data from next-generation sequencing. - Rachel Schwartz; Kelly Harkins; Anne Stone; Reed A. Cartwright (BMC Bioinform., 2015)

Estimating error models for whole genome sequencing using mixtures of Dirichlet-multinomial distributions. - Steven H. Wu; Rachel Schwartz; David J. Winter; Donald F. Conrad; Reed A. Cartwright (Bioinform., 2017)

SpartaABC: a web server to simulate sequences with indel parameters inferred using an approximate Bayesian computation algorithm. - Haim Ashkenazy; Eli Levy Karin; Zach Mertens; Reed A. Cartwright; Tal Pupko (Nucleic Acids Res., 2017)

accuMUlate: a mutation caller designed for mutation accumulation experiments. - David J. Winter; Steven H. Wu; Abigail A. Howell; Ricardo B. R. Azevedo; Rebecca A. Zufall; Reed A. Cartwright (Bioinform., 2018)

Federated learning and Indigenous genomic data sovereignty. - Nima Boscarino; Reed A. Cartwright; Keolu Fox; Krystal S. Tsosie (Nat. Mac. Intell., 2022)