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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

APE (Automated Pipeline Explorer)

A command line tool and Java API for the automated exploration of possible computational pipelines (scientific workflows) from large collections of computational tools.

Java
Program synthesis
Workflow technologies

Java
TeX
ANTLR

Bacting

Bacting is an open-source platform for chemo- and bioinformatics based on Bioclipse that defines a number of common domain objects and wraps common functionality, providing a toolkit independent, scriptable solution to handle data from the life sciences.

bioinformatics
Cheminformatics

Java
TeX

BridgeDbR

R package for the BridgeDb Java library making identifier mapping functionality available in the R environment.

persistent identifiers
Statistics

R
TeX
HTML

byteparsing

Parser library for reading custom binary files from Python.

Big data
Multi-scale & multi model simulations
Optimized data handling

Jupyter Notebook
Python
C++
+ 5

Canadian Writing Research Collaboratory (CWRC)

CWRC aims to make digital research methods broadly accessible, and to develop an active community of researchers engaged in exploring the potential of collaboration online.

Canadian culture & history
cultural studies
digital humanities
+ 1

JavaScript
PHP
HTML
+ 16

Ceiba

Ceiba and its command-line interface Ceiba-cli solve the problem of computing, storing, and securely sharing computationally expensive simulation results.

Optimized data handling

Python
TeX
Shell
+ 1

cffconvert

Command line tool to convert CITATION.cff files to various formats used by reference managers such as Zotero and JabRef.

Python
TeX
HTML
+ 1

Clustering Geo-data Cubes

Tool to perform cluster analysis of multi-dimensional geospatial data, running on local or distributed systems.

Big data
geospatial
Machine learning
+ 1

Python
Jupyter Notebook
TeX

citation.js

Citation.js converts formats like BibTeX, Wikidata JSON and BibJSON to CSL-JSON to convert to other formats like APA, Vancouver, RIS and back to BibTeX.

Bibliography
BibTeX
Data Citation
+ 2

JavaScript
TeX
Roff

cleanX

CleanX is an open-source python library for exploring, cleaning and augmenting large datasets of X-rays, or certain other types of radiological images.

Image processing
Machine learning

Jupyter Notebook
Python
TeX
+ 3

COVID-19 Integrated Surveillance Data in Italy

COVID-19 integrated surveillance data provided by the Italian National Institute of Health and processed via UnrollingAverages.jl to deconvolve the weekly simple moving averages.

Clinical Data
Computational Epidemiology
COVID-19
+ 16

Julia
TeX
Python