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The Top 384 Open Science Open Source Projects on Github

Categoriesย >ย Scienceย >ย Open Science
Wowchemy Hugo Themes โญย 6,191
๐Ÿ”ฅ Hugo website builder, Hugo themes & Hugo CMS. No code, build with widgets! ๅˆ›ๅปบๅœจ็บฟ่ฏพ็จ‹๏ผŒๅญฆๆœฏ็ฎ€ๅŽ†ๆˆ–ๅˆๅˆ›็ฝ‘็ซ™ใ€‚
Fma โญย 1,506
FMA: A Dataset For Music Analysis
Pyvista โญย 1,084
3D plotting and mesh analysis through a streamlined interface for the Visualization Toolkit (VTK)
Itk โญย 957
Insight Toolkit (ITK) -- Official Repository. ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions.
Zotero Scihub โญย 873
A plugin that will automatically download PDFs of zotero items from sci-hub
Awesome Open Geoscience โญย 832
Curated from repositories that make our lives as geoscientists, hackers and data wranglers easier or just more awesome
Zenodo โญย 619
Research. Shared.
Anonymous_github โญย 607
Anonymous Github is a proxy server to support anonymous browsing of Github repositories for open-science code and data.
Osf.io โญย 602
Facilitating Open Science
Openml โญย 535
Open Machine Learning
Opendata.cern.ch โญย 478
Source code for the CERN Open Data portal
Ck โญย 450
Collective Knowledge framework (CK) provides a common set of automation recipes, APIs and meta descriptions to enable collaborative, reproducible and unified benchmarking and optimization of ML Systems across continuously changing models, data sets, software and hardware:
Anahita โญย 382
Anahita is a platform and framework for developing open science and knowledge sharing applications on a social networking foundation.
Itkwidgets โญย 378
Interactive Jupyter widgets to visualize images, point sets, and meshes in 2D and 3D
Repairnator โญย 360
Software development bot that automatically repairs build failures on continuous integration. Join the bot revolution! ๐ŸŒŸ๐Ÿค–๐ŸŒŸ๐Ÿ’ž
Simpeg โญย 331
Simulation and Parameter Estimation in Geophysics - A python package for simulation and gradient based parameter estimation in the context of geophysical applications.
Otb โญย 285
Github mirror of https://gitlab.orfeo-toolbox.org/orfeotoolbox/otb
Food Inspections Evaluation โญย 281
This repository contains the code to generate predictions of critical violations at food establishments in Chicago. It also contains the results of an evaluation of the effectiveness of those predictions.
Tomviz โญย 256
Cross platform, open source application for the processing, visualization, and analysis of 3D tomography data
Open Computational Neuroscience Resources โญย 255
A publicly-editable collection of open computational neuroscience resources
Pycbc โญย 227
Core package to analyze gravitational-wave data, find signals, and study their parameters. This package was used in the first direct detection of gravitational waves (GW150914), and is used in the ongoing analysis of LIGO/Virgo data.
Avogadrolibs โญย 209
Avogadro libraries provide 3D rendering, visualization, analysis and data processing useful in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas.
Electrophysiologydata โญย 176
A list of openly available datasets in (mostly human) electrophysiology.
Headstart โญย 151
A framework for creating web-based knowledge maps
Snpr โญย 149
The sources of the openSNP website
Pvgeo โญย 146
๐ŸŒ Python package of VTK-based algorithms to analyze geoscientific data and models
Code Is Science โญย 133
Scientific code needs to be open source and peer reviewed
Osfr โญย 124
R interface to the Open Science Framework (OSF)
Moltemplate โญย 119
A general cross-platform tool for preparing simulations of molecules and complex molecular assemblies
Serratus โญย 115
Ultra-deep search for novel viruses
Ember Osf Web โญย 110
Ember front-end for the Open Science Framework
Pynwb โญย 108
A Python API for working with Neurodata stored in the NWB Format
Itk Wasm โญย 104
High performance spatial analysis in a web browser, Node.js, and across programming languages and hardware architectures
Obofoundry.github.io โญย 104
Metadata and website for the Open Bio Ontologies Foundry Ontology Registry
Datadeps.jl โญย 100
reproducible data setup for reproducible science
Expyriment โญย 97
Platform-independent lightweight Python library for designing and conducting timing-critical behavioural and neuroimaging experiments
Dcmjs โญย 97
dcmjs is a javascript cross-compile of dcmtk (dcmtk.org).
Simon Frontend โญย 96
๐Ÿ’น SIMON is powerful, flexible, open-source and easy to use machine learning knowledge discovery platform ๐Ÿ’ป
Reproducible Research โญย 95
A Reproducible Data Analysis Workflow with R Markdown, Git, Make, and Docker
Avogadroapp โญย 93
Avogadro is an advanced molecular editor designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas.
Helm Charts โญย 92
Kubernetes Helm Charts for the Center for Open Science
Share โญย 90
SHARE is building a free, open, data set about research and scholarly activities across their life cycle.
Expandar โญย 88
R Package for Interactive Panel Data Exploration
Continuous_analysis โญย 82
Computational reproducibility using Continuous Integration to produce verifiable end-to-end runs of scientific analysis.
Awesome Open Science Software โญย 82
awesome open list of pointers about open science for software and computational science
Openml R โญย 80
R package to interface with OpenML
Osfclient โญย 79
A python library and command-line client for file storage on OSF
Autode โญย 77
automated reaction profile generation
Openpmd Api โญย 77
๐Ÿ’พ C++ & Python API for Scientific I/O
Open Science Resources โญย 64
A publicly-editable collection of open science resources, including tools, datasets, meta-resources, etc.
Transform To Open Science โญย 61
Transformation to Open Science
Electrophysiologysoftware โญย 59
A list of openly available software tools for (mostly human) electrophysiology.
Module 5 Open Research Software And Open Source โญย 59
Module 5: Open Research Software and Open Source
Gigantum Client โญย 58
Source and build tools for the Gigantum Client
Waterbutler โญย 57
WaterButler is a Python web application for interacting with various file storage services via a single RESTful API, developed at Center for Open Science.
Earthdata โญย 55
Python client for NASA CMR
Open Solution Ship Detection โญย 53
Open solution to the Airbus Ship Detection Challenge
Clear Water โญย 51
Forecasting elevated levels of E. coli at Chicago beaches to provide proper warning to beach-goers.
Openpmd Standard โญย 47
๐Ÿ““ Open Standard for Particle-Mesh Data
Ten Simple Rules Dockerfiles โญย 45
Ten Simple Rules for Writing Dockerfiles for Reproducible Data Science
Itksphinxexamples โญย 45
Cookbook examples for the Insight Toolkit documented with Sphinx
Openpmd Viewer โญย 45
๐Ÿ Python visualization tools for openPMD files
Csstuff โญย 43
CS Stuff is an awesome collection of Computer Science Stuff.
Doathon โญย 43
Our discussion forum (see "issues") for the OpenCon Do-A-Thon, a day of trying, making, testing and doing to advance Open Research & Education. See our full website, with more information (including Github Help, and how to get involved).
Isic Archive โญย 43
International Skin Imaging Collaboration: Melanoma Project
Nwb Schema โญย 43
Data format specification schema for the NWB neurophysiology data format
Stringer Pachitariu Et Al 2018b โญย 40
Responses of 10,000 neurons to 2,800 natural images
Em โญย 40
Electromagnetic methods in geophysics - open educational resources.
Open Notebook Science โญย 38
questo corso รจ stato pensato per gli studenti di Scienze Politiche dell'Universitร  di Firenze. Questa sezione su github si concentra sull'utilizzo dell'ecosistema python per la Data Science. Slide del corso: https://docs.google.com/presentation/d/16WcexHHC8xK5Z1YE3tiBHRfBD46Y7bT4sn5viGUBPqs/edit?usp=sharing
Defects4j Dissection โญย 37
Defects4J Dissection presents data to help researchers and practitioners to better understand the Defects4J bug dataset
Hackthedeep โญย 34
The 4th Annual American Museum of Natural History Hackathon produced by the BridgeUP: STEM program
Covidregionaldata โญย 33
An interface to subnational and national level COVID-19 data. For all countries supported, this includes a daily time-series of cases. Wherever available we also provide data on deaths, hospitalisations, and tests. National level data is also supported using a range of data sources as well as linelist data and links to intervention data sets.
Meta Review โญย 32
Manuscript describing open collaborative writing with Manubot
Msk Staple โญย 32
STAPLE (Shared Tools for Automatic Personalised Lower Extremity modelling) consists of a collection of methods for generating skeletal models from three-dimensional bone geometries, usually segmented from medical images. The methods are currently being expanded to create complete musculoskeletal models.
Git Rdm โญย 32
A research data management plugin for the Git version control system.
Stringer Pachitariu Et Al 2018a โญย 31
Recordings of 10k neurons during spontaneous behaviors
Open Life Science.github.io โญย 31
A mentoring program for Open Life Science
Hackthestacks โญย 31
The 3rd Annual American Museum of Natural History Hackathon produced by the BridgeUP: STEM program
Hackthedinos โญย 31
The 2nd Annual American Museum of Natural History Hackathon produced by the BridgeUP: STEM program
Main โญย 30
Management materials and content
Neuroglia โญย 30
a Python machine learning library for neurophysiology data
Module 1 Open Principles โญย 29
Module 1: Open Principles
Datascience โญย 29
Keeping track of activities around research data
B2share โญย 29
B2SHARE software for the EUDAT CDI services.
Linkedresearch.org โญย 28
๐ŸŒ linkedresearch.org
Website โญย 28
Project Free Our Knowledge aims to organise collective action in support of open and reproducible research practices. This repository is used to design new campaigns (using the issues feature) and to build the website (www.freeourknowledge.org).
Pyrdm โญย 27
PyRDM is a Python-based library for research data management (RDM). It facilitates the automated publication of scientific software and associated input and output data.
Prodigenr โญย 27
Project directory generator R package
Roweb2 โญย 27
โ›”๏ธ [DEPRECATED] Active at
Open_science_101 โญย 25
Open_Science_101
Appian โญย 24
APPIAN is an open-source automated software pipeline for analyzing PET images in conjunction with MRI. The goal of APPIAN is to make PET tracer kinetic data analysis easy for users with moderate computing skills and to facilitate reproducible research.
How To Read A Research Compendium โญย 24
"How to Read a Research Compendium" - based on S. Keshav's "How to Read a Paper"
Mozilla Sprint 2018 โญย 24
DEPRECATED & Materials Moved: This sprint was to focus on brainstorming for the Joint Roadmap for Open Science Tools.
Cosn_webinar โญย 22
Tutorial talks at the Chinese Open Science Webinar series
Osodos โญย 22
Open Science, Open Data, Open Source
Events โญย 22
Materials related to events I might attend, and to talks I am giving
Templateresults โญย 21
A template for a data analysis folder that can be easily exported as a webpage or as Supplementary Materials
Openscience โญย 21
Empirical Software Engineering journal (EMSE) open science and reproducible research initiative
Site โญย 21
Website for the Open Scholarship Strategy
Awesome Utrecht University โญย 21
A curated list of awesome open source projects from Utrecht University.
1-100 of 384 projects

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Hardware ๐Ÿ“ฆย 148
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User Interface Components ๐Ÿ“ฆย 465
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Virtualization ๐Ÿ“ฆย 68
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Web Servers ๐Ÿ“ฆย 25
Web User Interface ๐Ÿ“ฆย 194
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