Molecular Vibrations

A Java based molecular modeling program. Has support for generating movies by interpolating between given positions, interactive display and manipulation of atoms and bonds, and dynamic modeling of substance formation.

Molsketch is a 2D molecular editing tool. Its goal is to help you draw molecules quick and easily. Of course you're creation can be exported afterwards in high quality in a number of vector and bitmap formats.

Given the chemical formula, MolWgt calculates the molecular weight of a substance.


Platforms: Mac, BSD, Linux

NOC is a open source development toolkit and a powerful molecular explorer for protein structure visualizing,analysis,crystallographic mapping, modeling, and refinement, Gromacs/Amber MD trajectories displaying,movie making...


Platforms: Windows, Mac, BSD, Linux

A database to handle voucher specimens of DNA sequences used for molecular phylogenetics.


Platforms: Windows, Mac, Linux

Octet is an object-oriented molecular representation framework written in Java.


Platforms: Windows, Mac, Linux

'Plasmidb' is a database management system (RDMS) used to manipulate, view and store molecular biology information rapidly and easily. Editable information includes: constructed plasmids, clones, standard vectors, primers, antibiotics, enzymes and more


Platforms: Windows, Mac, Linux

PSI is an open-source program for computing molecular properties using high-accuracy, ab initio, quantum mechanical models.


Platforms: Mac, BSD, Linux

A 3D viewer for molecular charge distributions.Implemented in OpenGL with GLUT.Includes a small OpenGL windowing library/widget set.


Platforms: Windows, Mac, BSD, Linux

The Python Macromolecular Library (mmLib) is a software toolkit and library of routines for the analysis and manipulation of macromolecular structural models, implemented in the Python programming language. It is accessed via a layered, object-oriented application programming interface, and...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

The main program is Main_sound_and_vibs.m. Up to 100 metrics are for each of sound, hand arm vibrations, whole body vibrations, and motion sickness. Main_sound_and_vibs calls the primary depedent function"Continuous_Sound_and_Vibrations_Analysis" which contains the switch statement controlling...


Platforms: Matlab

Matlab procedure that generates a Surface Plasmon Resonance profile to compare it with experimental data. Relevant parameters are given as graphical input.A 90dlT- prism is assumed, the reflected intensity is plotted against the external angle. It can be plotted on its own, or compared to a file...


Platforms: Matlab

HOT is a package originally constructed for combustion modeling in Matlab. It calculates common thermodynamic properties such as enthalpy, specific heat, entropy, internal energy, gamma, ideal gas constant, molecular weight, etc


Platforms: Matlab

This submission contains an implementation of the modal substructuring approach described in Chapter 9 of Ginsberg, d-deDUMechanical and Structural Vibrations,d-deDt Wiley, 2001. The well known Craig-Bampton component mode synthesis method is a special case of the approach implemented here. The...


Platforms: Matlab

MolMass is a function for calculating the molar weight of a substance given in form of a chemical formula.Function call: MM = MolMass(substance)Substance is a string of the chemical formula of a substance.Example: MM = MolMass('Fe2(SO4)3');Substance can also be a vector of substances opened by...


Platforms: Matlab

The Mole Package contains 3 mfiles and 1 matfile. molecules2 calculates molecular masses pertable provides data on the elements sym2an converts a chemical symbol to a valid atomic number (useful for molecules2 and pertable). atoms contains atomic number data.


Platforms: Matlab

Seqlib is a Python module and application package for population genetics (and more). It allows processing, analyzing and simulating biological sequences. It is specifically designed for automated large-scale sequence analysis. Main features: * Fasta-centered input and output, format...


Platforms: Mac

MDAnalysis is an object-oriented python toolkit to analyze molecular dynamics trajectories generated by CHARMM, Gromacs, NAMD, LAMMPS, or Amber. It allows one to read molecular dynamics trajectories and access the atomic coordinates through numpy arrays. This provides a flexible and relatively...


Platforms: Mac

How do you know if a chemical equation is balanced? What can you change to balance an equation? Play a game to test your ideas! Sample Learning Goals * Balance a chemical equation. * Recognize that atoms are conserved in a chemical reaction. * Describe the difference between coefficients and...


Platforms: Mac

Toxtree is a full-featured and flexible user-friendly open source application, which is able to estimate toxic hazard by applying a decision tree approach. Toxtree could be applied to datasets from various compatible file types. User-defined molecular structures are also supported - they could...


Platforms: Mac