I often pin up things in pinboard.in/u:sky/t:openscience and other tags that I think might have insightful commentary, promising toolchains, useful repositories, etc. not all of these have been read/explored/used yet, so no implied judgement yet **Toolchains/Projects** An api and backend code to gather the impacts of diverse scholarly products online. total-impact.org github.com/total-impact/total-impact-core Open access to 762,704 e-prints in Physics, Mathematics, Computer Science, Quantitative Biology, Quantitative Finance and Statistics arxiv.org/ Like an open science framework, for diy bio. web framework is not open source, but the gene assembly web ui code is github.com/Synbiota/GENtle2 synbiota-beta.herokuapp.com/ ResearchGate www.researchgate.net/aboutus.AboutUs.html A social networking tool for scientific communities figshare figshare.com/features psychfiledrawer.org/ Archive of replication attempts in experimental psychology Mendeley www.mendeley.com/features/ reference searching, organizing, sharing, note taking https://software-carpentry.org/ Our mission is to help scientists be more productive by teaching them basic computing skills. Our approach combines short, intensive workshops with self-paced online instruction. NumFOCUS Foundation numfocus.org/ Mission * To initiate and support educational programs furthering the use of open source software in science. * To promote the use of high-level languages and open source in science, engineering, and math research * To encourage reproducible scientific research runmycode www.runmycode.org/CompanionSite/firstVisit.do RunMyCode is a web service allowing people to run computer codes associated with a scientific publication (articles and working papers) using their own data and parameter values. Science commons creativecommons.org/science wiki.creativecommons.org/Research_Resource_Commons_workshop a technique for visual diff for hardware www.evilmadscientist.com/2011/improving-open-source-hardware-visual-diffs/ Public Knowledge Project pkp.sfu.ca/ The partnership brings together faculty members, librarians, and graduate students dedicated to exploring whether and how new technologies can be used to improve the professional and public value of scholarly research. pkp.sfu.ca/download **Open data sets / open access** Allen Brain Atlas www.brain-map.org/ A growing collection of online public resources integrating extensive gene expression and neuroanatomical data, complete with a novel suite of search and viewing tools. The World Bank data data.worldbank.org/ This site is meant to provide all users with improved access to World Bank data and to make that data easy to find and use. Open Knowledge Repository openknowledge.worldbank.org/ Open Data Handbook blog.okfn.org/2012/02/22/announcing-the-open-data-handbook-version-1-0/ The Handbook discusses the ‘why, what and how’ of open data – why to go open, what open is, how to make data open and how to do useful things with it. Public Data Sets aws.amazon.com/datasets Public Data Sets on AWS provides a centralized repository of public data sets that can be seamlessly integrated into AWS cloud-based applications. **Commentary** Royal Society urges era of open research data blogs.nature.com/news/2012/06/royal-society-urges-era-of-open-research-data.html What's open science sciencecommons.org/weblog/archives/2008/08/22/whats-open-science/ Why Paul Allen's Institute Chose Open Science pastebin.com/VjwvnE8f To accelerate research breakthroughs on brain diseases, the Allen Institute puts all its data online for use without fees. Open access and open source in chemistry Chemistry Central Journal 2007, 1:3 doi:10.1186/1752-153X-1-3 journal.chemistrycentral.com/content/1/1/3 Scientific data are being generated and shared at ever-increasing rates. Two new mechanisms for doing this have developed: open access publishing and open source research. We discuss both, with recent examples, highlighting the differences between the two, and the strengths of both. Letter Let the four freedoms paradigm apply to ecology www.cell.com/trends/ecology-evolution/fulltext/S0169-5347%2812%2900074-2 "... In our view, the explicit use of Free and Open Source Software (FOSS) with availability of the code is essential for completely open science: ‘scientific communication relies on evidence that cannot be entirely included in publications’, but ‘anything less than the release of source programs is intolerable for results that depend on computation’ ..." Replication studies: Bad copy www.nature.com/news/replication-studies-bad-copy-1.10634 In the wake of high-profile controversies, psychologists are facing up to problems with replication. The case for open computer programs Nature 482, 485–488 (23 February 2012) doi:10.1038/nature10836 www.nature.com/nature/journal/v482/n7386/full/nature10836.html **Citizen and DIY science** www.zooniverse.org/ diybio.org/ peer 2 peer university p2pu.org/en/ a platform for sharing learning challenges. for example, p2pu.org/en/groups/learn-how-to-contribute-to-science/content/why-should-you-become-a-citizen-scientist/ P2PU Challenges, Groups and Badge Ideas related to Open Science pad.p2pu.org/p/opensciencecontent publiclaboratory.org/about The core PLOTS program is focused on “civic science” in which we research open source hardware and software tools and methods to generate knowledge and share data about community environmental health. Our goal is to increase the ability of underserved communities to identify, redress, remediate, and create awareness and accountability around environmental concerns. PLOTS achieves this by providing online and offline training, education and support, and by focusing on locally-relevant outcomes that emphasize human capacity and understanding.