# Semantic search

Field | Description | |
---|---|---|

Exciting-code | Computational chemistry Computational materials science | full-potential all-electron density-functional-theory (DFT) package based on the linearized augmented plane-wave (LAPW) method |

FASTA | Bioinformatics | package for aligning nucleotide or amino acid sequences |

FASTX | Bioinformatics | A collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing. |

FEFF | Computational chemistry Computational materials science | a real-space full multiple scattering (RSFMS) Green's function method |

FFTW | Computational science Performance library | Freely available high performance library to perform fast Fourier transformations |

FastQC | Bioinformatics | Aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. |

Fire | Computational fluid dynamics | commercial computational fluid dynamics package |

Fluent | Computational fluid dynamics | commercial computational fluid dynamics package |

FreeBayes | Bioinformatics | Bayesian SNP and short indel caller from the Marth lab (who created Mosaik). |

GAMESS | Computational chemistry Computational materials science | ab initio quantum chemistry |

GARLI | Bioinformatics | Performs heuristic phylogenetic searches ... |

GATK | Bioinformatics | Structured software library for writing analysis tools for next-generation sequencing data. |

GCTA | Bioinformatics | A tool for Genome-wide Complex Trait Analysis |

GENE | Plasma turbulence | plasma microturbulence code |

GNU compiler collection | System tool | compiler collection for a number of languages including C, C++ and Fortran |

GPAW | Computational chemistry Computational materials science | real-space DFT |

GROMACS | Computational chemistry Bioinformatics Molecular dynamics | versatile package for molecular dynamics |

Gaussian | Computational chemistry | widely used quantum chemistry software |

Gnuplot | Visualisation | portable command-line driven graphing utility |

Grace | Visualisation | WYSIWYG tool to make two-dimensional plots of scientific data |

Greens | Computational materials science | electronic structure codes based on the KKRASA Green's function technique |

HMMER | Bioinformatics | package for working with profile hidden Markov models (HMM) |

Hkl2map | Structural biology | is a graphical user-interface for macromolecular phasing |

Inspector | System tool | memory error and thread checker |

Intel MPI | System tool | MPI library |

Intel compiler suite | System tool | compilers for C, C++ and Fortran |

Jaguar | Computational chemistry | ab initio quantum mechanics |

LAMMPS | Molecular dynamics Computational materials science | classical molecular dynamics code |

MKL | System tool | efficient mathematics library |

MOLDEN | Computational chemistry Computational materials science | display ab initio molecular densities |

MPQC | Computational chemistry | ab initio quantum chemistry |

MSC Nastran | Solid mechanics | Finite Element Analysis (FEA) solver |

MUSIC | Bioinformatics | C++ library for interprocess communication in large scale neuronal network simulations |

MVAPICH2 | System tool | MPI library |

Mafft | Bioinformatics | multiple sequence alignment program |

Mathematica | Scientific computing | computational software for technical computing |

Matlab | Visualisation Programming language | programming language with extensive plotting and graphics functionalities |

Meep | Computational materials science | finite-difference time-domain simulation software package |

Molsim | Computational chemistry | software for molecular dynamic, Monte Carlo, and Brownian dynamics simulation |

MrBayes | Bioinformatics | Bayesian estimation of phylogeny |

Muscle | Bioinformatics | fast, high-quality multiple sequence alignment |

NAMD | Computational chemistry Molecular dynamics | parallel molecular dynamics code |

NCAR diagnostic packages | Climate research | climate model diagnostics |

NCL | Climate research | analysis and visualization |

NCO | Climate research | data analysis |

NMRPipe | Bioinformatics | NMR spectroscopy data analysis suite |

NorESM | Climate research | global climate model |

NumPy | Scientific computing | the fundamental package needed for scientific computing with Python |

Octave | Visualisation Scientific computing | numerical computation and visualisation language |

Octopus | Computational chemistry Computational materials science | time dependent density-functional theory code |