2023 Calendar

Wikidata Basics

Monday, 10-11am | Calendar

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Speaker: Kat Koziar (UC Riverside) - Leigh Phan (UCLA)

Have you heard of linked data or Wikidata and want to know what they are, and how you can use them? Have you ever wondered why there are so many wiki*thing*.org websites, and how they're interconnected? This is the workshop for you!

Wikidata is a free and open knowledge base that provides structured, linked data not just for Wikipedia, but to anyone. It is used globally by many sites and services.

In this workshop we will describe what Wikidata is and used for; how it's connected to Wikimedia projects (such as Wikipedia); how it's leveraged by many other sites and services as a point of open data; and more importantly, an overview of how you can edit and use it.

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Managing and Sharing Data for NIH Projects

Monday, 11am-12pm | Calendar

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Speaker: Wasila Dahdul (UC Irvine) - Derek Devnich (UC Merced) - Reid Otsuji (UC San Diego) - Ho Jung Yoo (UC San Diego)

NIH has issued a new Data Management and Sharing Policy (effective January 25, 2023) to promote the sharing of scientific data and its reuse in future research. Join this workshop to learn about data sharing strategies and resources that will help you comply with the new NIH policy. We will cover good practices for data management, how to find standards for data and metadata, and selecting an appropriate data repository for your discipline or data type. Participants will come away with a better understanding of the process of data management and how to locate resources that align with the new NIH policy.

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Workshop Materials: Slides - Recording

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Writing a Data Management and Sharing Plan for NIH

Monday, 1-2pm | Calendar

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Speaker: Ariel Deardorff (UC San Francisco) - Wasila Dahdul (UC Irvine)

Have you heard of the new NIH Data Management and Sharing Policy but want to learn more about how to comply? Want some more guidance on writing your Data Management and Sharing Plan (DMS plan)? In this hands-on workshop we will quickly introduce the new policy and then work through each section of the DMS plan so you understand what to write and can start drafting your own plan. We will also cover how to locate DMS plan templates and sample plans, and highlight resources for learning more.

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Workshop Materials: Slides - Recording

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Data Loofah - help you identify errors in your data

Monday, 2-3pm | Calendar

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Speaker: Matthew Ponzini (UC Davis Health Clinical and Translational Science Center)

Data cleaning can be a time consuming aspect of research. Join us for look at Loofah, a tool to help researchers clean their data. Data Loofah was developed within the UCD Clinical & Translational Science Center (CTSC) – Biostatistics program. This interactive demonstration will provide and overview of the tool including the scope, how it works and use cases. Attendees will be provided with instruction on how to use the code in your research.

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Workshop Materials: Recording

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Python Users Group

Monday, 2-3pm | Calendar

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Speaker: Maggie Beherens (UC Davis) - Nick Ulle (UC Davis)

Come join the Davis Python Users Group to talk about all things Python! In this 'birds of a feather' session we invite you to talk about how you use Python in your research workflows, general questions you have about the language, and/or how to start a community of practice for Python users at your institution.

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FAIR and ML, AI Readiness, and AI Reproducibility (FARR)

Monday, 3-4pm | Calendar

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Speaker: Christine Kirkpatrick (San Diego Supercomputer Center)

With the emergence of machine learning (ML) usage in research comes greater complexity for data stewards, research facilitators, and researchers. This session will introduce FAIR and ML, AI Readiness with a focus on the role of institutions and data repositories, and AI reproducibility. Participants will be encouraged through interactive, live polls, and open discussion to discuss their challenges, pain points, and interest as it relates to any of the topics.

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Workshop Materials: Slides - Recording

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Data Visualization: Dos and Donts

Monday, 4-5pm | Calendar

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Speaker: Greg Janee (UC Santa Barbara) - Renata Curty (UC Santa Barbara)

Data visualizations can be powerful tools to present patterns and insights from research findings. However, the effectiveness of communicating data visually is highly dependent on key design and accuracy principles. Join us in a discussion about what makes good data visualizations and things that should be avoided at all costs. This session will cover some bad and good real-world examples, and attendees will walk away with essential tips to better represent their data in a graphical form.

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Workshop Materials: Slides

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Stepping outside the CAVE: Developments in Virtual Reality technology for 3D data exploration

Tuesday, 10-11am | Calendar

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Speaker: Oliver Kryelos (UC Davis) - Pamela Reynolds (UC Davis)

Virtual Reality (VR) has evolved from an expensive and finicky niche technology only available at well-funded large institutions, into a practical consumer product with tremendous research potential. While current-generation VR devices are primarily intended for the video gaming market, their use is not limited to gaming and has tremendous potential for researchers. The VR Research Initiative at UC Davis DataLab is translating visualization technology initially created for the UC Davis W.M. Keck Center for Active Visualization in the Earth Sciences (KeckCAVES), to function with modern commodity VR devices. By developing and supporting open-source software for gaming VR headsets, DataLab seeks to promote equitable access to emerging technologies and enable diverse communities of researchers and the public to explore 3D data. In this session, we will discuss the fundamental principles and reasons why VR is highly effective for the analysis of large and complex three-dimensional data. We will introduce several concrete VR applications based on those principles that are being developed at UC Davis DataLab, and will describe how participants can build their own VR systems, able to run DataLabs VR applications, at their own institutions. By the end of this session participants will be able to: describe how current-generation virtual reality (VR) technology such as VR headsets meant for gaming can effectively be used for scientific data analysis; discuss why VR is useful for analysis of data, specifically complex and large three-dimensional data; and identify where to go to learn more about setting up their own VR systems using the latest VR technologies for research.

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Web Archiving as Data

Tuesday, 11am-12pm | Calendar

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Speaker: Tori Maches (UC San Diego) - Stephanie Labou (UC San Diego)

Put on your digital historian hat and join us for an exploration of web archiving as data! In this session we will answer questions such as: What even is web archiving? Why should I care about it? How do I access web archived stuff? What kind of analysis can I do with it? We will use as a case study UC San Diego's guidance for covid prevention, as posted on websites, from Spring 2020 - present. We'll demonstrate how to retrieve the history of a website, work with the html text data in Python, and track changes regarding campus guidance on topics like masking and remote instruction.

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Workshop Materials: Slides - Recording

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Reproducibility for Everyone

Tuesday, 11am-12:30pm | Calendar

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Speaker: April Clyburne-Sherin (Reproducibility for Everyone) - Kanika Khanna (UC Berkeley) - Teena Bajaj (UC Berkeley) - Victoria Farrar (Reproducibility for Everyone) - Nafisa Jadavji (Reproducibility for Everyone)

Rigor and reproducibility are at the core of modern science. Many new initiatives and tools have been established to address barriers to reproducibility. While very welcome, these projects have led to a proliferation of online tools and resources which can be hard to sift through.

Reproducibility for Everyone (R4E) is a global, community-led reproducibility education initiative. R4E runs practical and accessible workshops to introduce the concept of reproducibility to researchers. We demonstrate reproducible tools and methods that can improve research by making it more efficient, transparent, and rigorous. Every R4E workshop is customized for the audience. Since 2018, R4E volunteer instructors have reached over 2500 researchers around the world through over 40 workshops.

This workshop will introduce reproducible workflows and a range of tools along the themes of organization, documentation, analysis, and dissemination. After a brief introduction to the topic of reproducibility, the workshop will provide specific tips and tools useful in improving daily research workflows. The content will include modules such as data management, electronic lab notebooks, reproducible bioinformatics tools and methods, protocol and reagent sharing, data visualization, and version control. All modules include interactive learning, real-time participation, and active knowledge sharing. The methods and tools introduced help researchers share work with their future self, their immediate colleagues, and the wider scientific community.

Following this workshop, participants will be able to:

• Apply a conceptual framework for reproducibility, replicability, and robustness of research.
• Explore practical, accessible tools and methods for advancing the reproducibility of research.
• Reuse and adapt the Reproducibility for Everyone modular curriculum to their own training and research needs.
• Evaluate their reproducibility barriers and solutions through interactive knowledge sharing.

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Workshop Materials: Slides

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GIS & Mapping: Where to Start

Tuesday, 1-2pm | Calendar

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Speaker: Susan Powell (UC Berkeley)

Interested in digital mapping and GIS (geographic information science), but not sure where to start? Have some experience, but want to learn more about what the campus has to offer? This virtual workshop is for you! We'll provide an overview of the GIS and digital mapping landscape as a whole, including: which tools are out there and how to choose the right one for your needs, common terms used in the field, resources for learning how to get started mapping, and where to go to find data to create your first project. No experience or special software is required to participate in this workshop. The Zoom link to the workshop will be sent to registrants 24 hours in advance.

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Workshop Materials: Slides

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Developing your data science portfolio

Tuesday, 2-4pm | Calendar

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Speaker: Michele Tobias (UC Davis) - Pamela Reynolds (UC Davis)

How can you demonstrate your technical skills to a potential employer, supervisor, funder, or collaborator? During this workshop we will discuss digital (online) portfolios, which complement your CV/resume by showcasing your coding, data visualization, data analysis, mapmaking, and other skilled technical abilities. We will discuss various purposes for digital portfolios, the components of a digital portfolio, methods and tools for creating one, and considerations for carefully curating and presenting your work in an engaging manner. By the end of this workshop, participants will be able to: identify personally relevant reasons to create a digital portfolio; describe basic components of a digital portfolio; identify tools for creating and curating their digtial portofolio; and find examples of digital portfolios related to their career goals (programmers, data scientists, geospatial scientists, etc.).

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How to Get Wikidata Using SPARQL

Wednesday, 10am-12pm | Calendar

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Speaker: Kat Koziar (UC Riverside) - Leigh Phan (UCLA)

Wikidata is a free structured knowledge base, currently with over 100 million items. Its records include people, objects, works of art, places, events, geographies, concepts, and even journal articles. Wikidata also includes the relationships between items. This hands-on introductory workshop will provide an overview of item records in Wikidata, including how they are structured and described, and a demonstration on how to retrieve these items using the query language SPARQL. No previous knowledge of Wikidata or SPARQL is necessary, but we highly recommend attending the Wikidata Basics workshop held on Monday, February 13, 2023.

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R-Users Group

Thursday, 10am-12pm | Calendar

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Speaker: Wesley Brooks (UC Davis) - Liza Wood (UC Davis)

Come join the Davis R Users Group to talk about all things R! In this 'birds of a feather' session we invite you to talk about how you use R for your research data analyses and visualizations, general questions you have about the language, and/or how to start a community of practice for R users at your institution.

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WiDS Datathon Onboarding

Wednesday, 12pm-1pm | Calendar

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Speaker: Pamela Reynolds (UC Davis)

The 6th Annual Women in Data Science (WiDS) Datathon is open until March 1, 2023. This year’s Datathon focuses on utilizing data science to better prepare and adapt to the challenges caused by climate change and extreme weather events. Participants are challenged to blend machine-learning and physics-based forecasts to improve long-term weather forecasting, thereby helping communities and industries adapt to the challenges of climate change.

At this event we will cover:

• What the Datathon is all about
• Signing up for the Datathon
• Getting registered on Kaggle
• Joining the WiDS Datathon Slack organization
• Forming and finding a team by connecting with other participants
• Exploring existing notebooks, tutorials, and other Datathon resources.

Whether a beginner or experienced data scientist, everyone is welcome to participate. The Datathon is open to individuals or teams of up to 4, and at least half of each team must be individuals who identify as women.

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Wikipedia edit-a-thon

Wednesday, 1-2:30pm | Calendar

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Speaker: Ann Glusker (UC Berkeley) - Stacy Reardon (UC Berkeley) - Corliss Lee (UC Berkeley) - Margaret Philips (UC Berkeley)

Wikipedia’s inclusion trouble is well-documented. While the reasons are up for debate, the practical effect of this disparity is not: content is skewed by the lack of participation by underrepresented groups. This adds up to an alarming absence in an important repository of shared knowledge. Let’s change that! Join us on Zoom for a tutorial for the beginner Wikipedian followed by communal updating of Wikipedia entries.

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Workshop Materials: Slides

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Data De-identification in Practice

Wednesday, 2-4pm | Calendar

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Speaker: Renata Curty (UC Santa Barbara) - Greg Janee (UC Santa Barbara)

This workshop will cover key definitions, recommendations, and techniques to implement data de-identification/anonymization. Attendees will be invited to follow along and complete exercises with a provided dataset using the online graphical user interface of the R sdcMicro package for disclosure control. No R programming experience is required.

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Workshop Materials: Slides

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Exploring Digital Archives

Wednesday, 3-5pm | Calendar

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Speaker: Wendy Kurtz (UCLA) - Anthony Caldwell (UCLA)

Do you need to search digital archives for hidden treasures and unknown tidbits for your research projects? This workshop will explore the tools and techniques that allow you to capture, search, and synthesize information stored in digital archives. Using the internet archive as an example, we will combine the power of DEVONthink, a document and information management tool that allows you to collect, organize, edit, and annotate documents of any kind, Tinderbox, and Obsidian sophisticated note-taking applications designed to capture and analyze complex relationships and ideas and Zotero a reference manager used to capture and manage bibliographic data and related research materials.

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Responsible Data Science

Thursday, 10am-12pm | Calendar

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Speaker: Pamela Reynolds & team (UC Davis)

Technical advancements through data science combined with the exponential increase in data has led to research breakthroughs across domains and generated entirely new industries. But, lagging behind this growth is our understanding of the evolving socio-technical landscape and ability to predict the indirect consequences of our work. While laws determine the legal parameters governing data use, data science approaches that are technically legal can still be used unethically and irresponsibly, with disastrous consequences from loss of revenue to human rights violations. Through case studies and interactive sessions, this workshop provides an overview of how to practice responsible data science by incorporating considerations of ethics, equity, and justice. We will discuss FACT (fairness, accuracy, confidentiality, and transparency) based approaches to increasing the integrity of our work in data science. By the end of this workshop, learner should be able to: Describe examples of how the development of data science can both contribute to inequities and be leveraged to address them in their own domain. Begin to identify the underlying goals and incentives influencing their data-driven research. Assess whether a research project’s data meets FAIR criteria. Use a responsible data science framework to evaluate the potential impact(s) of a research project case study. Revise their research design using FACT principles.

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Introduction to containers: creating reproducible, scalable, and portable workflows

Thursday, 12-1pm | Calendar

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Speaker: Orion Cohen (UC Berkeley) - Alex Goldberg (UC Berkeley) - Wei Feinstein (UC Berkeley)

This training will introduce you to the key concepts and tools for using containers, in particular Docker and Singularity containers. Containers make it easy to install software, move your computation between different computing environments, and make your workflow reproducible. In this training, we will discuss the advantages of containers, how to create containers, and how to use containers in several common scientific computing scenarios.

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Workshop Materials: Slides - Recording

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Julia User Group

Thursday, 1-2pm | Calendar

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Speaker: Nick Ulle (UC Davis) - Carl Stahmer (UC Davis)

Are you using Julia? If so, come join the Davis Julia Users Group! In this 'birds of a feather' session we invite you to talk about how you learned to use Julia, what problems you are tackling with it, and how you've integrated the language into your research workflows.

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Using Library Collections for Computational Research

Thursday, 2-3pm | Calendar

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Speaker: Rachel Starry (UC Riverside) - Sandy Enriquez (UC Riverside) - Kathryn Stine (UC San Francisco) - Charlie Macquarie (UC San Francisco)

Whether you are a student, researcher, or library worker, library collections are a rich potential source of data for research or community projects. The concept of "collections as data" relates to the responsible use and reuse of cultural heritage materials, university archives, and other digitized records for data-driven research in both the sciences and humanities. UC libraries are increasingly joining other cultural heritage stewards in providing researchers with datasets drawn from their collections.

This workshop will introduce participants to both technical resources and ethical considerations for the reuse of library collections as research data. We will discuss the importance of metadata and documentation when using collections as data, and will look at one tool for computationally analyzing collections (HathiTrust Research Center Analytics). We will also explore some specific collections held by UCR Library and UCSF Library Archives & Special Collections that are available to use as data for historical research.

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Data-Driven Animation for Research and Science Communication

Friday, 10-11:30am | Calendar

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Speaker: Dr. Jessie Kendall Bar (UC San Diego)

In this 90-minute workshop, Dr. Jessica Kendall-Bar will introduce techniques that transform data into visualizations that accelerate research and facilitate communication. Kendall-Bar will share tools and tips to bring your data to life with data visualization tools and coding languages from PowerPoint to R, Python, Javascript, ArcGIS, Adobe After Effects, and Autodesk Maya. We will share tutorials and demos, show examples of the visualizations that are possible within these programs, and have some time at the end to do some collective dataviz brainstorming regarding specific datasets from workshop attendees.

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Wikidata edit-a-thon

Friday, 10am-1pm | Calendar

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Speaker: Kat Koziar (UC Riverside) - Leigh Phan (UCLA)

Join us for a Wikidata edit-a-thon! This is a great opportunity to learn basic Wikidata editing skills, and how Wikidata can be relevant to your research. From 10 - 11am, we'll cover how to add and edit Wikidata items. From 11am until 1pm, you can choose your level of participation. Dive into some hands-on solo editing or ask questions. While you can bring your own data projects, we will have a project list, so everything you need to successfully edit or upload a Wikidata item will be provided during the session.

No previous knowledge of Wikidata is necessary, but we highly recommend attending the Wikidata Basics workshop held on Monday, February 13, 2023.

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Getting started with qualitative data analysis: open tools and methods

Friday, 1-2pm | Calendar

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Speaker: Ann Glusker (UC Berkeley)

This workshop will give an overview of basic qualitative research methods, starting with (a little) theory, and moving on to sampling and theme development. We will then take a look at open tools for qualitative data analysis. After a brief demo of Taguette, other tools, such as QDA Miner, qcoder and QualCoder, will be reviewed. Additional resources will be mentioned and the slides/links made available.

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Workshop Materials: Slides

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Intro to ArcGIS Pro

Friday, 1-4pm | Calendar

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Speaker: Maggi Kelly (UC Berkeley) - Sean Hogan

ArcGIS Pro is ESRI's powerhouse desktop application for all things GIS. It can do anything from basic cartography to advanced geospatial modeling, and is well intergrated with web mapping and accessing online data. This introductory workshop will get you started creating maps using local and online GIS data. All UC students and staff should have access to ArcGIS software (to find out who to contact at your campus, see https://uc-gis-ucop.hub.arcgis.com). Temporary workshop licenses are also available.

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Workshop Materials: Recording

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