All software
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
- Batchfile
- C
- C#
- + 17
ASTRA Toolbox
The ASTRA Toolbox is a Python and MATLAB library of flexible, high-performance GPU-accelerated primitives for 2D and 3D tomography.
- CT
- GPU
- Image reconstruction
- + 4
- Batchfile
- C
- C++
- + 8
Parallel Ice Sheet Model (PISM)
An open-source modelling framework for ice sheets and glaciers
- C++
- geophysics
- Glacier
- + 5
- C
- C++
- CMake
- + 9
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
- Assembly
- C
- C++
- + 23
spec2vec
spec2vec is a novel similarity measure for comparing mass spectrometry data, which learns peak representations using Word2Vec.
- Machine learning
- Text analysis & natural language processing
- Batchfile
- Makefile
- Python
SAGECal
Fast, memory efficient and GPU accelerated radio interferometric calibration program
- Big data
- GPU
- High performance computing
- C
- C++
- CMake
- + 5
NNPDF
Fitting proton substructure to observation data using neural networks
- Machine learning
- C
- CSS
- HTML
- + 5
OpenLB
OpenLB is a C++ package for the implementation of lattice Boltzmann methods (LBM) to address a vast range of transport problems, e.g. in computational fluid dynamics. The modular open source code enables fast implementation of academic test problems and advanced engineering applications.
- Computational Fluid Dynamics
- High Performance Computation
- Lattice Boltzmann Methods
- + 4
- C
- C++
- Makefile
- + 2
matchms
Python library for fuzzy comparison of mass spectrum data and other Python objects
- Big data
- Optimized data handling
- Batchfile
- Makefile
- Python
- + 1
FAIR Data Point
RESTful web service that enables data owners to expose their data sets using rich machine-readable metadata.
- Big data
- Inter-operability & linked data
- Dockerfile
- Makefile
- Python
DeepRank
Deep learning framework for data mining protein-protein interactions using CNN
- Big data
- Machine learning
- Optimized data handling
- C
- Makefile
- Python
- + 2
MAGMa
MAGMa is an online application for the automatic chemical annotation of mass spectrometry data.
- Big data
- Visualization
- CSS
- Cython
- Dockerfile
- + 5