Biophysical Fitness Landscapes for Transcription Factor Binding Sites. - Allan Haldane; Michael Manhart; Alexandre V. Morozov (PLoS Comput. Biol., 2014)

Generative Capacity of Probabilistic Protein Sequence Models. - Francisco McGee; Quentin Novinger; Ronald M. Levy; Vincenzo Carnevale; Allan Haldane (CoRR, 2020)

Array programming with NumPy. - Charles R. Harris; K. Jarrod Millman; Stéfan van der Walt; Ralf Gommers; Pauli Virtanen; David Cournapeau; Eric Wieser; Julian Taylor 002; Sebastian Berg; Nathaniel J. Smith; Robert Kern; Matti Picus; et al. (Nat., 2020)

Mi3-GPU: MCMC-based inverse Ising inference on GPUs for protein covariation analysis. - Allan Haldane; Ronald M. Levy (Comput. Phys. Commun., 2021)