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54 software items. Page 1 of 5. 12 items per page. 1 filters active.
1-12 of 54

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
12
2951

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
2
1673

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
10
280

BridgeDb Java

Java library for identifier mapping

  • Data
  • persistent identifiers
  • Batchfile
  • CSS
  • HTML
  • + 5
18
237

matchms

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

  • Big data
  • Optimized data handling
  • Batchfile
  • Makefile
  • Python
  • + 1
14
160

ArrayAnalysis

ArrayAnalysis provides a user-friendly solution for transcriptomic data analysis. It allows researchers, regardless of their bioinformatics expertise, to efficiently analyse, explore, and interpret RNA sequencing and microarray datasets.

  • Data Analysis
  • data visualization
  • microarray
  • + 2
  • Batchfile
  • HTML
  • Inno Setup
  • + 2
2
146

CMLXOM

Java library for working with Chemical Markup Language files.

  • Chemical Markup Language
  • Chemistry
  • XML
  • Batchfile
  • HTML
  • Java
  • + 1
2
39

OMUSE

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

  • High performance computing
  • Multi-scale & multi model simulations
  • Batchfile
  • C
  • C++
  • + 10
8
27

Xenon

If you are using remote machines to do your computations, and don’t feel like learning and implementing many different APIs, Xenon is the tool for you.

  • batch-job
  • distributed computing
  • FTP
  • + 11
  • Batchfile
  • Java
  • Shell
11
13

Xenon command line interface

A command line interface for the Xenon library that allows you to use remote machines to do your computations.

  • High performance computing
  • Batchfile
  • Common Workflow Language
  • Dockerfile
  • + 2
2
9

eEecology Classification

Automatic classification of accelerometer data using a supervised learning approach.

  • Machine learning
  • Batchfile
  • CSS
  • HTML
  • + 3
1
5

LUE

LUE is software for storing and manipulating large amounts of information for large numbers of objects. The software is useful, and currently mainly used, in the context of environmental modelling of biological and physical systems, represented by agents and fields.

  • Agent-based modeling
  • environmental modelling
  • field based modelling
  • + 6
  • Batchfile
  • C
  • C++
  • + 6
3
4