DelPhi: a comprehensive suite for DelPhi software and associated resources

VMD: Visual molecular dynamics

William Humphrey, Andrew Dalke, Klaus Schulten · Journal of Molecular Graphics · 1996 · 64.1K citations

Engineering, Visual Molecular Dynamics, Molecular Biology +5

UCSF Chimera—A visualization system for exploratory research and analysis

Eric F. Pettersen, Thomas D. Goddard, Conrad C. Huang et al. · Journal of Computational Chemistry · 2004 · 46.8K citations

Interactive Visualization, Extensible Visualization System, Ucsf Chimera +15

TM-align: a protein structure alignment algorithm based on the TM-score

Yang Zhang · Nucleic Acids Research · 2005 · 3.8K citations · Full text

A rapid finite difference algorithm, utilizing successive over‐relaxation to solve the Poisson–Boltzmann equation

Anthony Nicholls, Barry Honig · Journal of Computational Chemistry · 1991 · 1.3K citations

Numerical Analysis, Finite Element Method, Electrostatic Program Delphi +15

Calculation of the total electrostatic energy of a macromolecular system: Solvation energies, binding energies, and conformational analysis

Michael K. Gilson, Barry Honig · Proteins Structure Function and Bioinformatics · 1988 · 848 citations