158 citations · 264 across the 4 of their papers we have counts for
4 papers
Generative Capacity of Probabilistic Protein Sequence Models
Francisco McGee, Quentin Novinger, Ronald M. Levy +2
Potts models and variational autoencoders (VAEs) have recently gained popularity as generative protein sequence models (GPSMs) to explore fitness landscapes and predict the effect…
Influence of Multiple Sequence Alignment Depth on Potts Statistical Models of Protein Covariation
Allan Haldane, Ronald M. Levy
Potts statistical models have become a popular and promising way to analyze mutational covariation in protein Multiple Sequence Alignments (MSAs) in order to understand protein str…
The AGBNP2 Implicit Solvation Model
Emilio Gallicchio, Kristina Paris, Ronald M. Levy
The AGBNP2 implicit solvent model, an evolution of the Analytical Generalized Born plus Non-Polar (AGBNP) model we have previously reported, is presented with the aim of modeling h…
On finite-size effects in computer simulations using the Ewald potential
Francisco Figueirido, Gabriela S. Del Buono, Ronald M. Levy
We discuss the origin and relevance for computer simulations of a strong finite-size effect that appears when using the Ewald summation formula. It can be understood as arising fro…