nasa / transform-to-open-science

Transformation to Open Science

Transform to Open Science (TOPS)

Introduction

Want a website instead of a GitHub repo? https://nasa.github.io/Transform-to-Open-Science/

Ready to get started transforming towards open science with us? Get started here!

Credit:

TOPS Goals and Values

What is Open Science?

Open Science is the principle and practice of making research products and processes available to all, while respecting diverse cultures, maintaining security and privacy, and fostering collaborations, reproducibility, and equity. (source)

What We Do

The world is changing rapidly. Everyday new problems emerge and it takes groundbreaking scientific discoveries to solve them. To stay ahead, the pace of science must accelerate and science needs to be even better, more accurate, and faster to enable the truly transformative breakthroughs that will help us thrive. Closed science, hoarding information and resources, silos of knowledge holds science back by limiting who can participate. We need more voices that work together and share knowledge and resources. Only then will we find new and better solutions. NASA's Transform to Open Science (TOPS) mission will allow us to create a scientific culture that is ready for 21st century challenges. Open Science will broaden participation, increase accessibility to knowledge, and embrace new technologies that can respond to these changes at scale. We hope you will join us in creating an open science infrastructure in your organization. TOPS will show you how!

TOPS Vision

A future where new scientific discoveries and solutions are enabled by inclusive open science collaborations.

TOPS Mission

Inspire and empower scientists, researchers, and communities to embrace open science as a catalyst for positive change, leading to a more equitable and impactful scientific ecosystem.

Strategic Objectives

Open Science creates more advanced and inclusive research faster, builds a more just and equitable world, and ensures that minds from all walks of life can participate in science. TOPS is NASA’s ambitious plan to accelerate open science practices. It’s a 5 year journey that will

1. Accelerate major scientific discoveries
2. Broaden participation by historically excluded communities
3. Increase understanding and adoption of open science principles and techniques

Overview Presentation

Short presentation on TOPS initiative:

• Slides:
• Recording starts at 6:48.

Open Science 101 Curriculum

The Open Science 101 curriculum is a 5-module curriculum designed to equip researchers, students and citizen scientists with the knowledge and skills to navigate the principles and practices of open science, including developing an open science and data management plan. Expand your Open Science expertise and equip yourself with the essential skills required to excel in the realm of open science. Sign up today to embark on your journey towards advancing your open science proficiency and gain your NASA Open Science Certification.

Get your NASA Open Science Badge

To get badged for Open Science 101, find enrollment information here.

Cite Open Science 101

Are you a researcher looking to cite our curriculum? The following DOI information will allow you to cite the current version:

NASA TOPS Open Science 101 Curriculum Development Team. (2023). NASA TOPS Open Science 101 version 1.0.0. Zenodo. DOI: 10.5281/zenodo.10161527.

Contribute to Open Science 101

TOPS has created a development version of the curriculum written in Markdown to enable the community to help make it even better. It can be found here.

Note: This version of the curriculum will not allow you to get badged. To get badged for Open Science 101 enroll here.

Methods of Contributing

To contribute, you can create a pull request, open an issue, or start a discussion.

For technical details on contributing to OS 101 and our GitHub in general please visit our contributing page.

Teaching Open Science 101

New Instructors

To become an instructor for Open Science 101, contact TOPS to find out more about this process. More details will be posted soon.

Existing Instructors

Are you already teaching OS101? Learn how you can get your instructor-led training listed on our website by reading our workshop listing requirements.

Open Science 101 Documentation

For documentation and resources related to the curriculum, check this directory.

TOPS and the Year of Open Science

2023 is the Year of Open Science, a NASA initiative to spark change and inspire open science engagement through events and activities that will shift the current paradigm and change practices. The Transform to Open Science (TOPS) community coordinates efforts designed to rapidly transform agencies, organizations, and communities. Learn more about NASA's Year of Open Science activities here.

Thank You for Joining Us in a Year of Open Science!

We would like to give a special thank you to organizations that participated with us in a Year of Open Science.

Implementation

• Area 1: Engagement: Building community, publishing articles, appearing on podcasts, expanding knowledge about open science, integrating Open Science into themes at large-scale events and conferences.
• Area 2: Capacity sharing: Producing online, free, open science curriculum, hosting workshops, events, cohorts, science team meetings, hackathons, and constructing multiple pathways to an Open Science Badge.
• Area 3: Incentives: Developing Open Science Badge/Certification and establishing high profile awards in support of open science research.
• Area 4: Moving towards openness: Recognizing open science practices, holding open meetings, sharing hidden knowledge, and inclusive collaborations.

Join TOPS Mailing List

Please join the TOPS email list to hear about further activities and become more involved! Discussions are enabled for this GitHub repository, so feel free to ask questions or join conversations there.

Past Newsletter Releases

For a preview of our content from our email list, feel free to read our past newsletter releases.

Repository

This repository is used to openly share information about TOPS and the Year of Open Science.

Contribute to the TOPS GitHub Repository

Markdown text documents are used for any planning documents that need to be developed. This could include linking to other resources. TOPS has few mechanisms for enabling the community to interact with this material:

Issues: Used to collect action items for TOPS to review and implement into the repository.

Pull Requests: Enables changes to Markdown code to be proposed through a fork of our repository. TOPS will review and merge these changes with consideration to the code of conduct.

Forks: Allows users to clone the TOPS repository and make changes before creating a Pull Request.

Discussions: Provides an effective medium to interact with TOPS and the Open Science community.

For a more detailed guide on how to use these mechanisms, check out our contribution guidelines here.

Have a Question for TOPS?

Frequently Asked Questions

There is a possibility that your question has been asked before. We have collected frequently asked questions here.

Start a Discussion

Start a question discussion on GitHub to ask TOPS or the community a question.

Contact Us

Reach out to TOPS directly using our contact form!

We hope you will join us and champion open science!

Announcements!

• Open Science 101 has been released and is now citable!
• The development version of Open Science 101 has been relocated here. Read more about contributing here.
• The TOPS resource on Open Science funding opportunities has been updated to highlight current NASA solicitations for open science.
• Materials from the CERN-NASA 2023 Open Science Summit “Accelerating the Adoption of Open Science” are openly available and may be of interest to those who wish to learn about developing policies and strategic plans for open science. View the presentation recordings and slides.
• NASA is pleased to announce award selections for the Transform to Open Science Training TOPST proposals. These exciting projects showcase open science in action and will advance adoption of open science by helping participants earn their NASA Open Science Certification through summer schools and virtual cohorts. Enroll here to learn more about opportunities to participate and earn your NASA open science certification!
• NSF releases a Year of Open Science Toolbox including powerpoint templates, letterhead, poster, and virtual backgrounds!
• NASA Awards Millions to Historically Black Colleges, Universities Promoting Equality and Diversity in Scientific Research. Read more.
• Biden-⁠Harris Administration Announces New Actions to Advance Open and Equitable Research factsheet
• Nature Article: Why NASA and federal agencies are declaring this the Year of Open Science
• Federal portal
• NASA's new Science Information Policy has been released! You can find resources, frequently asked questions and the full text of the policy at science.nasa.gov.
  • At TOPS, we are especially excited about the Open-Source Science Guidance for researchers funded by NASA's Science Mission Directorate. This guidance is being developed openly on GitHub, and contributions are welcome.
  • A presentation summarizing the policy for scientists created by M. J. Styczinski of JPL is available too!
• Apply to become a local lead for the 2023 Space Apps challenge! Learn more here.
• SMD's Data Portal has been launched! Explore NASA's science data as you explore open science.
• Proposal guidance

Contributors ✨

Thanks goes to these wonderful people (emoji key):

Chelle Gentemann 🤔 💻 📆 🚧	Reese Ingraham 💻	Isabella Bello Martinez 💻 🤔 🖋 🐛	Yvonne Ivey 💻 🤔 📆	Cynthia Hall 💻 🤔 📣	Steve Crawford 💻 🤔 👀	Justin Gosses 🐛
Danielle Groenen 💻	Chris Erdmann 🖋	Qiusheng Wu 🖋	Slesa Adhikari 🐛	Sara 🖋	Abhilipsa Sahoo 🚧	Daniel S. Katz 🚧
Daniel Mietchen 🚧	Edwin Kofler 🚧	Logan Kilpatrick 🖋 🚧	Lisa Federer 🖋	Max Jones 🚧	Tyson L. Swetnam 🚧	Jon Ander Oribe 🚧
Sierra V. Brown 🚧 🖋	Batool Almarzouq 🚧	Aman Goel 🚧	Matt Hall 🖋	Malvika Sharan 🖋	Hans Moritz Günther 🚧	Tomas Chor 🚧
Emily Cassidy 🚧	Senya Stein 🚧	Ting Sun 🚧	All Contributors 🚧	SALONICONTRACTOR 💻	Paige Martin 💻 🤔 🖋	Peter Newman 🚧
Brigitta Sipőcz 🚧	Natasha Batalha 🖋	Tkantz 💻	Catherine Patterson 🖋	JaclynStursma 📣 🚧 📢	Cyndy Sims Parr 🖋	Christopher Steven Marcum 🖋
Leighton L Christiansen 🖋	Leslie Hsu 🖋	Ashley E. Sands 🖋	maggiemmcadam 👀 ️️️️♿️	Maryam Zaringhalam (she/her) 🖋	Mike Trizna 🖋	Marshall J. Styczinski 🖋 🚧
Zach Chandler 🖋	Marcelo Arias 🚧	amanda-staller 🖋	jpolka2 🖋	Brian Ressler 📖 📣 💻 👀	Rachel Paseka 🖋 🚧 📣	hnorton613 🖋 📋 📢
Mike Croteau 🚧	amandamoonadams 🚧	HunterTTP 🚧

This project follows the all-contributors specification. Contributions of any kind welcome! Don't see your name? Let us know using our contact form.

transform-to-open-science's Issues

Create 'request TOPS presentation'

Create a link to a gform where people can ask for either resources to support a meeting with TOPS materials that they want to present or ask for someone from TOPS to speak or present or attend a discussion.
@chall-nasa

Setup Repository

Now that we have a repository, we should set it up with the following items:

• Update README to include more description of TOPS and its goals
• Add a file on how to contribute
• Add a code of conduct
• Add a license

Build a Dashboard/Ontology of Open NASA Data

Show the breadth open NASA data can be by categorizing NASA's publicly available data and creating an ontology of that data. A data ontology defines terminology, categories, properties, and relationships between the different concepts and data sources. You can visualize this ontology as network diagrams of shapes and lines for each data source. You can find a catalogue of NASA metadata in JSON format for all of the datasets at https://data.nasa.gov/data.json.

Create a NASA jupyterhub/Colab instance to do data analysis in a cloud framework

To ensure equity of data access and computation, as well as reproducible workflows, create a framework where users can log in, have a computational framework like jupyterhub/Google Colab and commonly used software (and the ability to install other GitHub packages), access NASA data in the cloud or in file systems available to the user, and develop, share and publish workflows using NASA data. Installed software versioning could be preserved and published along with products (data How-tos, publications, reports).

Additional computational resources (GPUs) could be available for NASA-funded researchers or other users (university-affiliated students/staff). Security, abuse would have to be managed.

Create a open science event calendar

Connect with OCOMM on the use of mission

Is TOPS a mission or project?

Develop compendium for TOPS resources

Consider redefining the TOPS acronym

I think the current acronym definition Transform to OPen Science (TOPS) could be improved by having the P stand for participatory: Transform to Open and Participatory Science (TOPS).

Yes, a good part of open science projects is already actively or passively facilitating participation by people not formally involved, but some parts of the open science landscape (e.g. initiatives that share their workflows only retroactively, e.g. after some key publication is out), actively or passively exclude such broader participation.

Conversely, many participatory science projects (usually framed in terms of citizen science) are only partially open, with much of their research workflows (especially study design and publications) not open to participation.

Having a prominent initiative like TOPS stress that it is desirable for open science projects to be more participatory and for participatory science projects to be more open would be a strong signal to both communities to pay more attention to interactions between open science and participatory science.

Add DEIA Statement

"Show your love for Open Science" link is restricted

On this page: https://github.com/nasa/Transform-to-Open-Science/blob/main/docs/Area1_Engagement/readme.md the link https://www.canva.com/design/DAE_9KAimo4/HGjINSG0FYnFPfjxHUTcIQ/view is restricted

Construct an Open Science Calendar Embedded in Github

Using Github Markdown and Github Markdown-supported HTML, create a calendar of open science embedded in the Github repo using the events from https://openresearchcalendar.org/calendar/.

ARD Cloud Optimized Best Practice Doc

Licensing for open science

Dear all,

@admercs recently posted about Definitions and Goal and mentioned that "licensing is critical in reducing barriers to IP use and promoting collaboration".

I am a scientist and I try to share the various pieces of code I write on github. But I'm always confused about the many "free" licenses out there, and I guess there are many scientists around the world in the same situation.

Has the OpenScience community as defined a standard license that we should use?
Does TOPS/NASA has a recommendation about that?

Henrique

Discourse / Streamlit / Discord

For community discussion we want an accessible discussion site to keep everything possible in the open. There are a lot of options, Discourse, Streamlit, Discord... Any feeling or preferences?

Add links to the public talks to the README

Add READ-only links to the public talks to the README

Develop data dictionary

Multi-language Assistance for NASA resource development, DAACs, and Users

Part of open science is accessibility. Are there support resources for people within NASA, those with NASA grants, and individual users that are interested in providing their scripts, APIs, and resources in multiple languages?

I think there should be dedicated translation experts that interact with scientists and users to ensure that the resources that NASA provides are accessible, interpretable, and meaningful to stakeholders that speak different languages. English is not the only language that science ‘happens’ in and it would be inhibiting to limit scientific insight, innovation, and progress based on language alone.

Create a guide for how researchers can share software

Create a guide for how researchers can share software. This can look at existing recommendations from AAS, AGU, GitHub, or Research Software Alliance. This can include what different services or best practices for how to share and preserve scientific software.

Stay in sync with UNESCO open science implementation working group

(don't know if this should be an issue or go in Discussions, please correct me)

As many of you know, the UNESCO Recommendation on Open Science was ratified in November 2021, and there is now an implementation group.

They have a Working Group on Open Science Infrastructures which "will be developing a series of supporting tools - technical briefs, fact sheets, guidelines and training materials - that will constitute an online ‘living’ Open Science Toolkit" (emphasise mine) and have their first meeting on 7th July 2022.

I am flagging this meeting so that the NASA TOPS folks can stay in sync with this important effort and avoid re-inventing any wheels!

Create Open Science Success Story Solicitation Feature and Database

We love hearing about how open science has improved people's lives! However, we currently do not have the infrastructure set up to ingest and store that data in a clean and efficient way. Your task will be to devise and implement a frontend method of soliciting and a backend method of storing those success stories, as well as making those stories publicly available and searchable. This could be as simple as a Google Form, but of course, the more integrated this feature is with the Github repo the better. One potential inspiration is the Open Science Success Story Database.

Create Discuss Forum to foster community discussions and knowledge sharing

Can we set up discussions on the github site? I just asked in the pangeo gitter & got a lot of good comments ---
Seems like it is useful to have both discourse for more accessible discussion and use github as well with a link to discourse.
https://docs.github.com/en/github/administering-a-repository/managing-repository-settings/enabling-or-disabling-github-discussions-for-a-repository
It seems like you configure it for a single repro through a config file:
https://github.com/scikit-hep/awkward-1.0/blob/main/.github/ISSUE_TEMPLATE/config.yml

Add hacktoberfest label to repository to participate in hacktoberfest!

https://hacktoberfest.com/participation/#maintainers

Might get more visibility to this repository if you participate in hacktoberfest

Cross post open job opportunities to the NumFOCUS job board

Hey folks, feel free to cross-post the open jobs https://github.com/nasa/Transform-to-Open-Science/blob/main/docs/Area4_Moving_To_Openness/job_opportunities.md to https://github.com/numfocus/jobs-board/issues and we can get them some extra visibility!

Where data producer scientists should put open software used to produce products

I deal quite often now with questions from Earth Venture Suborbital science teams (there are 5 current EVS-3 projects) and these teams have a requirement to deliver their data product software and code by the completion of the project and need to know where to deliver to. Currently the answer is to check with the DAAC, but the DAACs are currently not ready to do this (different levels of readiness, from "we don't do that" to "we have a DAAC github, lets put it there"). Coordination and uniform communication about what the teams are to do is very needed, and quickly. Happy to discuss more.

Add information from one pager

Either add a link to the 1 pager for tops and/or create a copy the 1 pager to hear as a markdown document

Update one pager on TOPS

Working with @steadyflux to engage with philanthropy groups

Set up for deploying the Website for TOPS from GitHub

We will want to develop a website to host information about Transform to Open Science and the Year of Open Science 2023.

• Submit NTRS
• Determine technology to use for hosting a website
• Determine best way to host the website
• Submit SRA
• Setup infrastructure for the webpages
• Deploy first page

New Members Activity: Create your own brainstorming document

Review the brainstorming document for your organization and develop your own

Will you release SolarSystem.nasa.gov code?

https://solarsystem.nasa.gov/planets/saturn/overview/

Would be great for this to be open source so everyone else can also base their solar system simulations on something concrete

🔒 - Create a SECURITY.md file and reference the NASA VDP

Template for SECURITY.md

Reference to add:https://www.nasa.gov/vulnerability-disclosure-policy

Open Science in Canada

The Government of Canada through its Office of the Chief Science Advisor has been advancing an open science initiative. Here are some recent policy documents:

• Roadmap for Open Science (February 2020)
  The Roadmap for Open Science corresponds with the Chief Science Advisor’s 2019 commitment to provide advice on the best way to make government-funded science accessible to all.
• A Framework for Implementing Open-by-Default with Federal Government Science (January 2021)
  This guidance document — one of a series of actions stemming from the Roadmap for Open Science —is intended to support scientists when releasing of federal research outputs, while presenting criteria on how to manage privacy, security, ethical considerations and appropriate intellectual property protection.
• The Open Science Dialogues: Summary of stakeholders round tables (February 2022)
  Open Science (also known as open scholarship) is the practice of making scientific inputs, outputs and processes freely available to all with minimal restrictions.

I sent a note to the appropriate Government of Canada office letting them know about TOPS and its aligned vision for open science. I recognize that one of the challenges in implementing open science is crossing international borders. If there are any other Canadian Open Science initiatives, I'd be very interested in identifying them here.

License unclear for logos

I randomly noticed this line in this page about the logos:

CCA 4.0

Do you mean the Creative Commons Attribution 4.0 International license? If so, it should be CC BY 4.0 instead. I'd be happy to submit a pull request with the change if that helps.

Create an open science corpus/literature database

Compile articles, blogs, books, and other writing related to open science into a corpus that can be searched by open scientists and explored with Natural Language Processing algorithms to understand trends and gaps. Could use something like a shared online Zotero library (zotero.org/) to begin.

Link to NASA's policies relevant to CoC

In the code of conduct, add a link to NASA's policies on anti-harassment and diversity: https://www.nasa.gov/offices/odeo/policy-and-publications

Enable collaborations

Create a google form similar to Women in Geospatial that can be used to set up email list / slack workspace.
@Earth2Ivey

Create NASA TOPs Shared Drive

Gather success stories from diverse groups doing NASA-related open science.

Gather transformational stories from diverse groups doing open science to share on the site. Much like the Open Science Success Stories Database at https://projectopen.io/ we want to collate various NASA-related stories showing the collaborative and diverse nature of open science and how it is positively impacting communities and advancing scientific knowledge.

Clarify request for information and PRs from TOPS panelists

During the TOPS panel meeting on 2022-10-05 at JPL, @bello-mart-isabella proposed a "GitHub activity" wherein panelists were encouraged to contribute to this repository via pull requests. What kind of information does TOPS want us to contribute?

Move the OSS FAQ to here

In the google drive, there is an OSS FAQ and it would be helpful to move that to here so that it can be shared more openly.

Add link to the deployed GitHub site on the repo

Under the repo settings, there's a link now that the repo is deployed as a site, can we add that to the description of the repo?

Publish source code of JPL Orbit Viewer

Similar to issue #80, can the source code for the JPL Orbit Viewer be published under an open source license?

Add description of material for website

Add a draft of the documentation that we would want added to the website in the future.

Create a Navigable Corpus of Open Science Literature

There is a wide range of open science-related literature and resources scattered across many locations. Your challenge will be to create a centralized, easily searchable database of the literature, as well as writing Natural Language Processing algorithms to analyze trends in the open science literature, as well as areas where more work is needed. Feel free to create a toy version using the collection of open source publications we have in our assets folder

What creative commons license is best for government created content?

CC-0, CC-BY, ?
Reports, presentations, videos, data. What licenses can be applied and to what content?
Is it different when vendor produced versus gov. employee?

Add copy of the talk to Zenodo

A copy of the talk should be added to Zenodo and then link to as well as google version to README

Add a .gitignore to the directory

We should add a .gitignore to the directory so things like checkmark files or other edits are added to commits

Change capitalization in repo name

should be renamed to Transform-to-OPen-Science

TOPS Monthly Newsletter

Hold for comms strategists

Create a Centralized Open Science Job Board

Using web scraping and natural language processing, create a centralized job board for job postings in open science.

Set up a form to register interest in participation in TOPS