Open Science is an umbrella term for a wide range of (proposed) structural changes in the ways science is done. It ranges from Open Access publishing, publishing manuscripts, open peer review and pre-registration of analyses, to open data, open protocols/methods and open source, as well as methods to make data and code Findable, Accessible, Interoperable and Reusable (FAIR). Persistent Identifiers for research objects make such an ecosystem of Open Science tools work. Some include performing science in public and easier ways to collaborate in Open Science. Also involving more people in science is generally included, as well as better methods for the assessment of science, which is the foundation of most problems in science.
This Open Science list is open, just like Open Science itself. What is delightful is rather subjective, because of the background of the initiators the list has started quite nerdy and focussed on infrastructure and scholarly communication. Please help and add more information by adding an "issue" or making a pull request (both options in menu above), especially on topics around reproducibility, meta-science and outreach, where this list is weaker.
The Black Goat - Three psychologists talk about doing science and talk candidly about their experiences.
Science for Progress - Political podcast highlighting science communicators, science advocates and academic reformers.
Open Science TV - Radical YouTube channel with interviews and long-form videos on Open Science.
SCHOLCOMM Discussion List - The association of College and Research Libraries maintains a distribution list on scholarly communication. The name may suggest it focused on outreach, but the focus is publishing.
COAR - Confederation of Open Access Repositories, an international association with all stakeholders.
IGDORE - The Institute for Globally Distributed Open Research and Education is an independent research institute dedicated to improving the quality of science, science education, and quality of life for scientists, students and their families.
SciRev - This system offers researchers the possibility to connect with colleagues across the globe by placing free scientific ads.
Invest in Open Infrastructure - Initiative that helps people interested in investing on the Open Science Infrastructure to choose were to invest.
Radical Open Access Collective - A community of scholar-led, not-for-profit presses, journals and other Open Access projects with a progressive vision for open publishing in the humanities and social sciences. They have an interesting mailing list.
Stop Tracking Science - Movement against science tracking that violates fundamental rights and the integrity of an open knowledge society.
Training & community
ReproducibiliTea - A group of local Open Science journal clubs discussing papers on reproducibility, Open Science, research quality, or good/bad research practices.
RIOT Science Club - A seminar series that raises awareness and provides training in Reproducible, Interpretable, Open & Transparent science practices.
UN Declaration - In 2020 the UNESCO, WHO and the UN High Commissioner for Human Rights call for “Open Science”.
Overviews, lists, databases
Rainbow of Open Science practices/tools - A wide overview, along the entire research work flow, of Open Science practices and tools that help. Made by Bianca Kramer and Jeroen Bosman (University of Utrecht).
NextCloud - NextCloud allows you to host a data cloud yourself, with all the corresponding privacy and freedom benefits. The system includes two office packages similar to Google Docs: Collabora office and OnlyOffice.
Collaborative Scientific MarkDown - MarkDown is a simple text-file based system that includes simple ways to add Markup to your documents. It is ideal for reuse, archiving and combining with code. The linked system is aimed at scientists and includes equations tables, and references.
Overleaf - LaTex based collaborative writing system.
Jupyter Notebooks - Code your scientific article to have all data and code together and allow others to easily continue where you left off.
Zettlr - Zettlr is a note taking and writing tool, it is free open source software, no vendor lock-in (MarkDown based), knows references (BibTex, JSON, Zotero), exports to many formats (including Word and HTML).
OLKI - A federated open source resource sharing and communication platform. A typical use case may be the easiest introduction. Work in progress.
SciFed - Draft specification for federating scientific activities using ActivityPub.
nLab - Nice example of collaborative working using a Wiki.
BibSonomy - Collaborative reference and bookmark manager.
Open Social Media - Distributed open social media based on Open Science principles: open standards, open code, community based. Linked is a list of academic and research servers/communities.
ArXiv - There are nowadays many manuscript servers, from institutional, funding agency to disciplinary repositories, but an honorary mention should go to arXiv, the repository where it all began with physics manuscripts.
DOAR - The Directory of Open Access Repositories is a large database of manuscript repositories.
Unpaywall - If you install their great browser add-on and are on a pay-walled article page, the add-on will point to any free versions of the article.
eLife - eLife is an important force when it comes to Open Access publishing and Open Review. It is a publisher, develops software and builds communities.
Copernicus - Copernicus is the main Open Review and Open Access innovator in the Earth sciences. It partners with the European Geosciences Union, which has an active Open Science community.
SciPost - Open Access journals, managed by scientists, open (post-publication) peer review.
Open Library of Humanities - The OLH publishes Open Access scholarship without article processing charges (APCs), but funded by an international consortium of libraries.
PubPub - The open-source, privacy-respecting, all-in-one collaborative publishing platform for communities small and large.
Open Journal System - The Open Journal Systems (OJS) is an open source software application for managing and publishing scholarly journals. Originally developed and released by Public Knowledge Project over 10,000 journals use it worldwide. [PHP, GPL]
F1000 - Faculty of 1000 is an Open Access and Open Peer Review publishing platform supporting data deposition and sharing.
Octopus - Legacy publishing demands full scientific papers. In the digital age you can publish parts much sooner. With Octopus you can publish hypotheses, small data sets, methods and peer reviews.
Contributor Roles Taxonomy - CRediT is a high-level taxonomy detailing who contributed what to a paper: Conceptualization, Data curation, Formal Analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing. This article explains why this is important.
Tenzing - With this tool you can easily create CRediT in various formats.
Open Peer Review
ReimagineReview - The largest database with innovative (Open) Peer Review initiatives.
Pubfair - COAR is building a communication system based on ActivityPub that connects Open Access repositories with peer review systems/journals.
Segmented peer review - A proposal to have reviewers only review the part of an article that is their core expertise. This could also tap into new groups of reviewers: for example, librarians reviewing the search strategies used in systematic review papers.
Peer Community In - PCI performs open pre-publication peer reviews in a range of life sciences.
PubPeer - This is a post-publication peer review system. As it allows for anonymous reviews it is mostly used to point to flaws in scientific papers. To collect peer comments on Twitter it has a PubPeerBot.
Zenodo - Repository for (almost?) everything. If there is a more specific repository it tends to be better to use that (to build collections, specific metadata support), but Zenodo is a great backstop. [GPL]
FAIR data - FAIR stands for Findability, Accessibility, Interoperability, and Reuse. It is thus orthogonal to Open Data, also closed data can be FAIR, but both concepts are important for building an Open Science infrastructure.
Academic Torrents - Tamperproof system to share large files and articles based on the distributed peer-to-peer system Bittorrent.
CrossRef - A non-profit with publishers as members that gives out the Digital Object Identifiers (DOI) for scientific articles, an important persistent identifier (PID) to connect Open Science tools and make articles easier to find.
DataCite - A group that is traditionally responsible for the DOIs of data, but their support (metadata) for manuscripts and articles is getting more comprehensive. Alternative PIDs are Handles and ARKs.
ORCID - This organization provides PIDs for researchers, which is especially helpful for people changing their names or people from countries with many of the same names.
Identifiers.org - System to systematically add stable identifiers to collections.
PIDapalooza - There are many more PIDs. The PIDapalooza festival celebrates them all. Although we should not be blind to their downside, they are also part of the micro-managing surveillance system.
Project FREYA - An EU project aiming at building a infrastructure for persistent identifiers (PIDs) as a core component of Open Science.
Zotero - A tool to help you collect, organize, cite, and share research. Cita is a Wikidata addon for Zotero that adds citations from Wikidata, and enables users to easily contribute missing data.
Scholia - A service that creates visual scholarly profiles using bibliographic and other information in Wikidata.
Open Citations - An not-for-profit infrastructure organization dedicated to the publication of open bibliographic and citation data. Citation data is important to find newer literature; the largest datasets are pay-walled.
Citation Typing Ontology - There are many reasons to cite an article, not always positive. This ontology provides a systematic way to indicate the reason.
AnyStyle - An API and tool to parses academic references to a machine readable format.