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1-12 of 13

haddock3

Haddock3 (High Ambiguity Driven protein-protein DOCKing) is a an information-driven flexible docking approach for the modeling of biomolecular complexes.

Inter-operability & linked data

Python
Fortran
C++
+ 8

2804

COPASI

COPASI is an open source software for simulation and analysis of biochemical networks and their dynamics. It provides simulations using ODEs, SDEs, or Gillespie's stochastic simulation algorithm, with optional discrete events. COPASI provides several analyses, optimization, and parameter estimation.

Dynamics
optimization
Parameter estimation
+ 3

C++
Java
Fortran
+ 17

2566

Parallel Ice Sheet Model (PISM)

An open-source modelling framework for ice sheets and glaciers

C++
geophysics
Glacier
+ 5

C++
Python
CMake
+ 9

717

DALES

DALES is a large-eddy simulation code designed for studies of the physics of the atmospheric boundary layer, including convective and stable boundary layers as well as cloudy boundary layers.

Fortran
C
TeX
+ 8

OMUSE

A Python environment to interface and couple oceanographic and other earth system model codes.

High performance computing
Multi-scale & multi model simulations

Fortran
Python
HTML
+ 10

AMUSE

Combine existing numerical codes in an easy to use Python framework. With AMUSE you can simulate objects such as star clusters, proto-planetary disks and galaxies.

High performance computing
Multi-scale & multi model simulations
Workflow technologies

AMPL
C
Fortran
+ 25

MUSCLE3

MUSCLE3 is a coupling library for building multiscale simulations out of single-scale models.

High performance computing
Multi-scale & multi model simulations

Fortran
C++
Python
+ 2

Davidson diagonalization in Fortran

This package contains a Modern Fortran implementation of the Davidson diagonalization algorithms to compute several eigenvalue-eigenvector pairs of a symmetric matrix

High performance computing

Fortran
CMake
Python

minimism

A minimal distributed MPI port from UFEMISM, used as a basis for UFEMISM2.0

Finite volume method
ice sheet
MPI
+ 1

Fortran
MATLAB
Mathematica
+ 4

NetCDF2LittleR

An application to convert NetCDF files to the Little-R format

Fortran
CMake
Pascal

OpenDA

Open data assimilation toolbox. OpenDA is an open interface standard for a set of tools to quickly implement data-assimilation and calibration for arbitrary numerical models.

Optimized data handling

Java
Fortran
Python
+ 21

QUICKLB

QUICKLB is a very efficient library that sacrifices optimality for speed. It shines in distributed applications that have unpredictable unbalanced computational peaks in their domains.

Computational Fluid Dynamics (CFD)
Fortran
High performance computing
+ 2

Fortran
Python
CMake