• TINKER

• Referenced in 11 articles [sw04095]
• including several generalized Born (GB/SA) models, generalized Kirkwood implicit solvation for AMOEBA, an interface...

• APBS

• Referenced in 95 articles [sw05766]
• most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media ... protein-protein binding kinetics, implicit solvent molecular dynamics of biomolecules, solvation and binding energy calculations...

• QTM

• Referenced in 3 articles [sw14198]
• Triangle/Tetrahedral Meshes) constructs quality meshes for implicit solvation models of biomolecular structures starting from atomic...

• VASPsol

• Referenced in 1 article [sw27046]
• VASPsol: We implemented an implicit solvation model that describes the effect of electrostatics, cavitation...

• SDPBS

• Referenced in 7 articles [sw17208]
• solvated biomolecules. The Poisson-Boltzmann equation (PBE) is one important implicit solvent continuum model...

• CAMPARI

• Referenced in 0 articles [sw39269]
• ABSINTH force field paradigm and implicit solvation model. CAMPARI is a joint package for performing...

• NSOL

• Referenced in 2 articles [sw21620]
• included as implicit solvation effects, such as continuum model using distance dependent dielectric constant. While...

• LS-VISM

• Referenced in 3 articles [sw16158]
• implement numerical methods for a variational implicit-solvent model (VISM). The input of the package ... dielectric coefficients. The output includes estimated solvation free energies and optimal macroscopic solute–solvent interfaces...

• TMSmesh

• Referenced in 21 articles [sw14719]
• numerical simulation of biomolecules, especially in implicit solvent modeling (e.g., see a review ... rise to a route to simulate electrostatic solvation of large-scale molecular systems. The binary...

• PyGBe

• Referenced in 5 articles [sw17642]
• continuum model. It computes solvation energies for proteins modeled with any number of dielectric regions ... solving the Poisson-Boltzmann equation of the implicit-solvent model in integral form. PyGBe achieves...

• Maple

• Referenced in 5403 articles [sw00545]
• The result of over 30 years of cutting...

• Mathematica

• Referenced in 6445 articles [sw00554]
• Almost any workflow involves computing results, and that...

• Matlab

• Referenced in 13702 articles [sw00558]
• MATLAB® is a high-level language and interactive...

• ISIM

• Referenced in 4 articles [sw01100]
• SimTK ISIM interface a simple Java graphical user...

• CUDA

• Referenced in 1336 articles [sw03258]
• The NVIDIA® CUDA® Toolkit provides a comprehensive development...

• PETSc

• Referenced in 1594 articles [sw04012]
• The Portable, Extensible Toolkit for Scientific Computation (PETSc...

• TetGen

• Referenced in 185 articles [sw04046]
• TetGen, a Delaunay-Based Quality Tetrahedral Mesh Generator...

• Gromacs

• Referenced in 124 articles [sw04128]
• GROMACS is a versatile package to perform molecular...

• DOLFIN

• Referenced in 203 articles [sw04313]
• DOLFIN is a C++/Python library that functions...

• FEniCS

• Referenced in 856 articles [sw04314]
• The FEniCS Project is a collaborative project for...