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1-12 of 76

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

2573

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

C++
Cuda
MATLAB
+ 8

1254

Parallel Ice Sheet Model (PISM)

An open-source modelling framework for ice sheets and glaciers

C++
geophysics
Glacier
+ 5

C++
Python
CMake
+ 9

733

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

Python
Batchfile
Makefile

145

MAGMa

MAGMa is an online application for the automatic chemical annotation of mass spectrometry data.

Big data
Visualization

Python
JavaScript
Makefile
+ 5

matchms

Python library for fuzzy comparison of mass spectrum data and other Python objects

Big data
Optimized data handling

Python
TeX
Batchfile
+ 1

DeepRank

Deep learning framework for data mining protein-protein interactions using CNN

Big data
Machine learning
Optimized data handling

Python
R
C
+ 2

Vantage6

An open-source platform for supporting the development of federated learning projects

federated learning
healthcare
privacy preserving analysis
+ 1

Python
TypeScript
HTML
+ 6

Research Software Directory

A content management system for research software, which promotes the visibility, reuse, and impact of research software.

FAIR
Research Software Impact
Software Citation

TypeScript
Java
PLpgSQL
+ 7

HyperCanny

Finds edges in high-dimensional data using the Canny algorithm.

High performance computing

C++
C
Python
+ 3

Twiqs

Software behind the web server twiqs.nl, which has provided free access to statistics about Dutch tweets since 2010

Big data
Text analysis & natural language processing
Visualization

Perl
Java
HTML
+ 3

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