software
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- Amber Assisted Model Building with energy refinement. Used for biological and molecular simulations.
- ATLAS Provides optimal software for lineal algebra.
- BLAS Routines for operations with vector and matrices.
- EasyBuild
- GAMESS General Atomic and Molecular Electronic Structure System, a general ab initio quantum chemistry package.
- gamos5 Geant4-based medicine-oriented-simulations. gamos5 simulates of the passage of particles through matter.Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.
- Gaussian Provides state-of-the-art capabilities for structure modeling.
- gcc, g++, gfortran Compilers and its libraries.
- gnuplot Gnuplot is a command-line driven graphing utility used to visualize mathematical functions and data interactively.
- GSL GNU Scientific Library.
- Lapack Routines for solving lineal equations, eigenvalue problems.
- Ligplot Program for automatically ploting protein-ligand interactions.
- Matlab A programming language that allows matrix manipulations, plotting of functions and data, implementation of algorithms, creation of user interfaces and interfacing with programs written in other languages.
- MPICH High performance and widely portable implementation of MPI.
- Octave High-level interpreter language for numerical computations. It provides capabilities for numerical solution of lineal and nonlineal problems, and graphic capabilities for data manipulation and visualization.
- OpenMPI Open source Message Passing Interface (MPI) implementation.
- pgapack Parallel Genetic Algorithm Library
- python A widely used high-level, general-purpose, interpreted, dynamic programming language.
- R Free software environment for statistical computing and graphics.
- Scilab Opensource software for numerical computations.
- Weka Weka is a collection of machine learning algorithms for data mining tasks. The algorithms can either be applied directly to a dataset or called from your own Java code. Weka contains tools for data pre-processing, classification, regression, clustering, association rules, and visualization.
- MrBayes MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. MrBayes uses Markov chain Monte Carlo (MCMC) methods to estimate the posterior distribution of model parameters.
- BEAST BEAST2 is a cross-platform program for Bayesian phylogenetic analysis of molecular sequences.
- RAxML RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees. It can also be used for post- analyses of sets of phylogenetic trees, analyses of alignments and, evolutionary placement of short reads.
software.1488006399.txt.gz · Última modificación: 2022/11/02 17:58 (editor externo)