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software [2017/02/25 07:06] Ernesto Eduardo Diaz Condesoftware [2022/11/02 17:58] (actual) – editor externo 127.0.0.1
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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^|Framework for installing software|
 +^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.| 
 +^Bioinformatics Software^||
 +^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.| 
  
-  * **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)

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