CHARMM: the biomolecular simulation program

BR Brooks, CL Brooks III… - Journal of …, 2009 - Wiley Online Library
Abstract CHARMM (Chemistry at HARvard Molecular Mechanics) is a highly versatile and
widely used molecular simulation program. It has been developed over the last three …

Advances in methods and algorithms in a modern quantum chemistry program package

Y Shao, LF Molnar, Y Jung, J Kussmann… - Physical Chemistry …, 2006 - pubs.rsc.org
Advances in theory and algorithms for electronic structure calculations must be incorporated
into program packages to enable them to become routinely used by the broader chemical …

OpenMolcas: From source code to insight

I Fdez. Galván, M Vacher, A Alavi… - Journal of chemical …, 2019 - ACS Publications
In this Article we describe the OpenMolcas environment and invite the computational
chemistry community to collaborate. The open-source project already includes a large …

Advances in molecular quantum chemistry contained in the Q-Chem 4 program package

Y Shao, Z Gan, E Epifanovsky, ATB Gilbert… - Molecular …, 2015 - Taylor & Francis
A summary of the technical advances that are incorporated in the fourth major release of the
q-Chem quantum chemistry program is provided, covering approximately the last seven …

Multiwfn: A multifunctional wavefunction analyzer

T Lu, F Chen - Journal of computational chemistry, 2012 - Wiley Online Library
Multiwfn is a multifunctional program for wavefunction analysis. Its main functions are:(1)
Calculating and visualizing real space function, such as electrostatic potential and electron …

Gabedit—A graphical user interface for computational chemistry softwares

AR Allouche - Journal of computational chemistry, 2011 - Wiley Online Library
Gabedit is a freeware graphical user interface, offering preprocessing and postprocessing
adapted (to date) to nine computational chemistry software packages. It includes tools for …

Cclib: a library for package‐independent computational chemistry algorithms

NM O'boyle, AL Tenderholt… - Journal of computational …, 2008 - Wiley Online Library
There are now a wide variety of packages for electronic structure calculations, each of which
differs in the algorithms implemented and the output format. Many computational chemistry …

Spinach–a software library for simulation of spin dynamics in large spin systems

HJ Hogben, M Krzystyniak, GTP Charnock… - Journal of Magnetic …, 2011 - Elsevier
We introduce a software library incorporating our recent research into efficient simulation
algorithms for large spin systems. Liouville space simulations (including symmetry …

DL-FIND: an open-source geometry optimizer for atomistic simulations

J Kästner, JM Carr, TW Keal, W Thiel… - The journal of …, 2009 - ACS Publications
Geometry optimization, including searching for transition states, accounts for most of the
CPU time spent in quantum chemistry, computational surface science, and solid-state …

Three-dimensional protein structure prediction: Methods and computational strategies

M Dorn, MB e Silva, LS Buriol, LC Lamb - Computational biology and …, 2014 - Elsevier
A long standing problem in structural bioinformatics is to determine the three-dimensional (3-
D) structure of a protein when only a sequence of amino acid residues is given. Many …