Gromacs

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

Open-source package for molecular dynamics simulation designed for biological macromolecules. This package can perform molecular dynamics simulation of biological macromolecules such as proteins, lipids, and nuclear acids as well as solutions by controlling temperature and pressure. This package can treat long-range interaction and free energy, and is designed for parallel computing.

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Molcas

  • Level of openness 0 ☆☆☆
  • Document quality 3 ★★★

An application for ab initio quantum chemical calculation. This application can calculate ground states and excited states of molecules by the SCF/DFT, the CASSCF/RASSCF, and the CASPT2/RASPT2 method. It is architected especially for obtaining potential energy surfaces of excited states, and maintains high-speed, high-accuracy, and robust open codes.

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BigDFT

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

An open-source application for first-principles calculation based on pseudopotential and wavelet basis. Electronic state calculation of massive systems is performed with high accuracy and high efficiency by using adaptive mesh. Parallel computing by MPI, OpenMP, and GPU is also supported.

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DMOL3

  • Level of openness 0 ☆☆☆
  • Document quality 3 ★★★

An application for first-principles calculation based on density functional theory. This application is included in Material Sudio, and can evaluate electronic states and properties of various physical systems such as molecules, atomic clusters, crystals, and solid surfaces based on the all-electron method and the pseudopotential method. It can also be applied to evaluation of the chemical reaction such as catalysis and combustion reaction, and is optimized for large-scale parallel computing.

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PyMOL

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

An application for visualization of biopolymers. This application can visualize biopolymers by using its original command line and graphical user interface, more than 600 settings for visualization, and more than 20 visualization schemes. This application also supports more than 30 file formats such as PDB and multi-SDF, and can utilize sophisticated visualization methods such as the ray tracing.

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ASM Alloy Phase Diagram Database

  • Level of openness 0 ☆☆☆
  • Document quality 3 ★★★

Database of equilibrium phase diagrams of alloys. This database contains more than 40,000 binary and ternary alloy phase diagrams, including associated crystal and reaction data for each phase diagram. One can easily search a target phase diagram by selecting contained elements.

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Elastic

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

Elastic is a set of python routines for calculation of elastic properties of crystals (elastic constants, equation of state, sound velocities, etc.).  It is implemented as a extension to the Atomic Simulation Environment (ASE) system.  There is a script providing interface to the library not requiring knowledge of python or ASE system.

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Elk

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

An open-source application for the first-principles calculation by the all-electron calculation method based on plane wave bases. In addition to standard methods (LDA, GGA, etc.), the LDA+U method, treatment of spin-orbit interaction (noncolinear magnetism), and calculation of phonons are supported. Hybrid parallel computing by OpenMP and MPI is also supported.

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OpenMX

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

OpenMX is a first-principles software based on the pseudo-atomic localized basis functions. It calculates electronic structure rapidly for a wide range of materials including crystals, interfaces, liquids, etc. It speedily provides molecular dynamics simulation and structural optimization of large-scale systems and also implements a hybrid parallelism. It is able to deal with non-collinear magnetism and non-equilibrium Green’s function calculations for electrical conductions.

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Yambo

  • Level of openness 3 ★★★
  • Document quality 3 ★★★

Code for performing many-body calculations based on the GW method, BSE method, etc. starting from Kohn-Sham wave functions obtained using density functional theory. The code relies on wave function output from either abinit or Quantum Espresso. A python interface, Yambo-py, is also under development.

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