Awesome Open Source
Awesome Open Source
Combined Topics
reproducible-science x
Advertising 📦 9
All Projects
Application Programming Interfaces 📦 120
Applications 📦 181
Artificial Intelligence 📦 72
Blockchain 📦 70
Build Tools 📦 111
Cloud Computing 📦 79
Code Quality 📦 28
Collaboration 📦 30
Command Line Interface 📦 48
Community 📦 81
Companies 📦 60
Compilers 📦 60
Computer Science 📦 74
Configuration Management 📦 39
Content Management 📦 167
Control Flow 📦 197
Data Formats 📦 77
Data Processing 📦 266
Data Storage 📦 132
Economics 📦 60
Frameworks 📦 198
Games 📦 122
Graphics 📦 103
Hardware 📦 148
Integrated Development Environments 📦 47
Learning Resources 📦 147
Legal 📦 28
Libraries 📦 119
Lists Of Projects 📦 21
Machine Learning 📦 336
Mapping 📦 61
Marketing 📦 15
Mathematics 📦 55
Media 📦 228
Messaging 📦 97
Networking 📦 304
Operating Systems 📦 84
Operations 📦 120
Package Managers 📦 52
Programming Languages 📦 229
Runtime Environments 📦 96
Science 📦 42
Security 📦 375
Social Media 📦 26
Software Architecture 📦 70
Software Development 📦 68
Software Performance 📦 57
Software Quality 📦 127
Text Editors 📦 45
Text Processing 📦 131
User Interface 📦 310
User Interface Components 📦 465
Version Control 📦 29
Virtualization 📦 68
Web Browsers 📦 38
Web Servers 📦 25
Web User Interface 📦 194

The Top 128 Reproducible Science Open Source Projects on Github

Categories > Science > Reproducible Science
Sacred ⭐ 3,606
Sacred is a tool to help you configure, organize, log and reproduce experiments developed at IDSIA.
Singularity ⭐ 2,201
Singularity: Application containers for Linux
Nextflow ⭐ 1,478
A DSL for data-driven computational pipelines
Rrtools ⭐ 525
rrtools: Tools for Writing Reproducible Research in R
Wdl ⭐ 472
Workflow Description Language - Specification and Implementations
Containerit ⭐ 253
Package an R workspace and all dependencies as a Docker container
Reprozip ⭐ 244
ReproZip is a tool that simplifies the process of creating reproducible experiments from command-line executions, a frequently-used common denominator in computational science.
Fglab ⭐ 207
Future Gadget Laboratory
Awesome Reproducible Research ⭐ 158
A curated list of reproducible research case studies, projects, tutorials, and media
Liftr ⭐ 158
🐳 Containerize R Markdown documents for continuous reproducibility
Sarek ⭐ 126
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
Sarek ⭐ 116
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Everware ⭐ 111
Everware is about re-useable science, it allows people to jump right in to your research code.
Vistrails ⭐ 92
VisTrails is an open-source data analysis and visualization tool. It provides a comprehensive provenance infrastructure that maintains detailed history information about the steps followed and data derived in the course of an exploratory task: VisTrails maintains provenance of data products, of the computational processes that derive these products and their executions.
Itk Js ⭐ 91
High performance spatial analysis in a Web Browser or Node.js
Dcmjs ⭐ 81
dcmjs is a javascript cross-compile of dcmtk (dcmtk.org).
Analysis Flow ⭐ 70
Data Analysis Workflows & Reproducibility Learning Resources
Fgmachine ⭐ 66
Future Gadget Machine
Scipion ⭐ 63
Scipion is an image processing framework to obtain 3D models of macromolecular complexes using Electron Microscopy (3DEM)
Tcpdbench ⭐ 50
The Turing Change Point Detection Benchmark: An Extensive Benchmark Evaluation of Change Point Detection Algorithms on real-world data
Pyseer ⭐ 50
SEER, reimplemented in python 🐍🔮
Ten Simple Rules Dockerfiles ⭐ 45
Ten Simple Rules for Writing Dockerfiles for Reproducible Data Science
Emp ⭐ 44
🔬 Empirical CLI
Reproducible Audio Research ⭐ 43
List of Reproducible Audio Research Papers
Analysispreservation.cern.ch ⭐ 40
Source code for the CERN Analysis Preservation portal
Testipynb ⭐ 39
unit-testing for a collection of jupyter notebooks using nbconvert
Em ⭐ 38
Electromagnetic methods in geophysics - open educational resources.
Copernic ⭐ 35
Versioned structured data, with change-request mechanic, at scale.
Reproducibilidad ⭐ 30
Reproducible Science: what, why, how
Literate Programming ⭐ 28
This is the repository for the Literate Programming Workshop
Ukbrest ⭐ 27
ukbREST: efficient and streamlined data access for reproducible research of large biobanks
Prodigenr ⭐ 27
Project directory generator R package
Researchcompendium ⭐ 24
NOTE: This repo is archived. Please see https://github.com/benmarwick/rrtools for my current approach
Better Science Code ⭐ 23
A presentation on best coding/data management practices based on my own experiences of scientific computing and data analysis and heavily borrowing from the recommendations of many others. View presentation at: https://edeno.github.io/Better-Science-Code
Openscience ⭐ 21
Empirical Software Engineering journal (EMSE) open science and reproducible research initiative
Repro_web_stack ⭐ 19
The stack I use to make reproducible reports of my statistical analyses
Csv_wrangling ⭐ 18
Repository for reproducibility of the CSV file project
Papers As Modules ⭐ 17
Software Papers as Software Modules: Towards a Culture of Reusable Results
Cortex ⭐ 17
Continuously-integrated Open-source Reproducible TeX
Reproduciblescience ⭐ 16
Short course on reproducible science: what, why, how
Supernnova ⭐ 16
Open Source Photometric classification https://supernnova.readthedocs.io
Reproducibility_in_plant_pathology ⭐ 15
A systematic/quantitative review of articles, which will provide a basis for identifying what has been done so far in the field of plant pathology research.
Showyourwork ⭐ 14
Fully reproducible, open source scientific articles in LaTeX.
Seamless ⭐ 13
Seamless is a framework to set up computations (and visualizations) that respond to changes in cells. Cells contain the input data as well as the source code of the computations, and all cells can be edited interactively.
Computation ⭐ 12
notebooks and tutorials on computation in geophysics
R10e Ds Py ⭐ 12
Reproducible Data Science in Python (SciPy 2019 Tutorial)
Reproducibility News ⭐ 11
Currated reproducibility news displayed on reproducibility.org
Reprozip Examples ⭐ 11
Examples and demos for ReproZip
D6 ⭐ 9
Simplify workflows of D6 research projects. The package provides utilities to set up a standardized folder structure and version control, and Rmarkdown templates and rendering functionality for a reproducible workflow.
Architecture ⭐ 9
Architecture and overarching documentation for o2r microservices
Awesome Reproducible R ⭐ 9
An awesome list of resources for reproducible research in R. Includes a table of comparison for different tools.
Sclerotinia 366 ⭐ 9
Analysis for "Population structure and phenotypic variation of *Sclerotinia sclerotiorum* from dry bean (*Phaseolus vulgaris*) in the United States"
Open Science ⭐ 8
🔬 Open, reproducible science using Make, RMarkdown and Pandoc
Quantitative Big Imaging 2019 ⭐ 8
The material for the Quantitative Big Imaging course at ETHZ for the Spring Semester 2019
Ngs Preprocess ⭐ 8
A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
Website ⭐ 8
Tilburg Science Hub is a platform that gives researchers the tools and guidance to be in control and save time in their empirical research projects.
Simple_workflow ⭐ 7
A very simple, re-executable neuroimaging publication (code)
Reproducible Research Guidelines ⭐ 6
Guidelines for accountable and reproducible computational research
Lightr ⭐ 6
Import spectral data and related metadata in R
Reproducible Science ⭐ 6
Ism2017 ⭐ 6
Reproducible research code for the experiments presented in our article "Kara1k: a karaoke dataset for cover song identification and singing voice analysis" published at IEEE ISM 2017
Module 3 Reproducible Research And Data Analysis ⭐ 6
Module 3: Reproducible Research and Data Analysis
Mpgap ⭐ 6
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
Single Cell Papers With Code ⭐ 6
Papers with code for single cell related papers
Rpsmf ⭐ 6
Code for Probabilistic Sequential Matrix Factorization
Reproduce_open_data_materials_and_code ⭐ 5
Materials for Session 5 of Re:produce workshop
Watchme ⭐ 5
📷 R package that supports the analysis of images annotations 📷
Ctv Computational Environments ⭐ 5
A CRAN task view for computational environments and reproducibility
Abra Collaboratory ⭐ 5
git reproducible - version control your ideas
Single_cell_clustering_notebook ⭐ 4
Rmarkdown Intro ⭐ 3
Introduction to R Markdown
Satin ⭐ 3
Code used in the article "SATIN: A Persistent Musical Database for Music Information Retrieval" by Yann Bayle, Pierre Hanna and Matthias Robine in CBMI 2017. SATIN is a MIR dataset for reproducible research.
Mg7 ⭐ 3
Configurable and scalable 16S metagenomics data analysis
Grading Reproducibility In Remote Sensing Articles ⭐ 3
Position Paper for the J-STARS Special Issue on Reproducible Research in Remote Sensing
Pyeit Apps ⭐ 3
Reproducible codes and data in electrical impedance tomography using pyEIT.
Intro_rmarkdown ⭐ 3
Write reproducible and dynamic documents - Introduction to R Markdown
Reproducible Research And Giscience ⭐ 3
Ready to use R Markdown notebook for the paper "Reproducible research and GIScience: an evaluation using AGILE conference papers"
Reproducible Science Workshop ⭐ 2
Material for a workshop on reproducible science with R and RStudio
Reproducible Dataviz ⭐ 2
ASM18 workshop - Reproducible Data Visualization using `rmarkdown` and `ggplot2`
Reproecodecisions ⭐ 2
Are conservation and ecological decision support tools reproducible?
Reproducible Science Nyu ⭐ 2
https://nyu.reproduciblescience.org
Pgrb ⭐ 2
Practical Guide to Reproducibility in Bioinformatics (Work In Progress)
Reproducibleresearchcode ⭐ 2
Python code to reproduce our article "Toward faultless content-based playlists generation for instrumentals"
Maker ⭐ 2
Highly experimental R package to use GNU `make` directly from RStudio.
Best Practices Preprint ⭐ 2
Git copy of our Overleaf project for the preprint of Nine Best Practices for Research Software Registries and Repositories: A Concise Guide
Sensebox Binder ⭐ 2
A reproducible analysis of environmental data - from hardware to plot
Template ⭐ 2
Template for YODA's organigram on data analysis
Tuto Reproducible Research ⭐ 2
Tutorial on caring about reproducibility in scientific research.
Elastic_benchmarks ⭐ 2
Benchmark problems in 2D and 3D for the elastic wave equation.
Projecttemplates ⭐ 1
R project templates for reproducible research and analyses
Booklet ⭐ 1
Водич за најдобри пракси за повторлива обработка на податоци. A guide for best practices in reproducible data analysis (in Macedonian).
Py_session ⭐ 1
Print session information
Bids Curation Gui ⭐ 1
A Graphical User Interface to help with BIDS Curation
Ecoconsqrps ⭐ 1
Questionable Research Practices in Ecology and Conservation
Tracker ⭐ 1
Tracker is a CLI for easy creation of reproducible Robotics and ML research
Crescynt Training ⭐ 1
CRESCYNT training material for data rescue and data integration workshops 2018
Snakemake Bismark Methyldackel ⭐ 1
Bismark-MethylDackel DNA methylation quantification pipeline in snakemake.
2017 Uzh Course Material ⭐ 1
Repository that hosts the course materials for the 2017 edition of Programming Practices for Research in Economics at the University of Zurich
Cellrank_reproducibility ⭐ 1
Code to reproduce results from the CellRank manuscript
A Makefile For Developing Containerized Latex Technical Documents ⭐ 1
Code used for 'A Makefile for Developing Containerized LaTeX Technical Documents'.
1-100 of 128 projects

Related Projects

Reproducibility Reproducible Science Projects (44)
Python Reproducible Science Projects (41)
R Reproducible Science Projects (22)
Reproducible Research Science Projects (15)
Reproducible Research Reproducibility Science Projects (7)
Python Reproducible Research Science Projects (6)
Advertising 📦 9
All Projects
Application Programming Interfaces 📦 120
Applications 📦 181
Artificial Intelligence 📦 72
Blockchain 📦 70
Build Tools 📦 111
Cloud Computing 📦 79
Code Quality 📦 28
Collaboration 📦 30
Command Line Interface 📦 48
Community 📦 81
Companies 📦 60
Compilers 📦 60
Computer Science 📦 74
Configuration Management 📦 39
Content Management 📦 167
Control Flow 📦 197
Data Formats 📦 77
Data Processing 📦 266
Data Storage 📦 132
Economics 📦 60
Frameworks 📦 198
Games 📦 122
Graphics 📦 103
Hardware 📦 148
Integrated Development Environments 📦 47
Learning Resources 📦 147
Legal 📦 28
Libraries 📦 119
Lists Of Projects 📦 21
Machine Learning 📦 336
Mapping 📦 61
Marketing 📦 15
Mathematics 📦 55
Media 📦 228
Messaging 📦 97
Networking 📦 304
Operating Systems 📦 84
Operations 📦 120
Package Managers 📦 52
Programming Languages 📦 229
Runtime Environments 📦 96
Science 📦 42
Security 📦 375
Social Media 📦 26
Software Architecture 📦 70
Software Development 📦 68
Software Performance 📦 57
Software Quality 📦 127
Text Editors 📦 45
Text Processing 📦 131
User Interface 📦 310
User Interface Components 📦 465
Version Control 📦 29
Virtualization 📦 68
Web Browsers 📦 38
Web Servers 📦 25
Web User Interface 📦 194
"GitHub" is a registered trademark of GitHub, Inc. Awesome Open Source is not affiliated with GitHub.

All non readme contents or Github based topics or project metadata copyright Awesome Open Source 2018-2021