Data Visualization Lunch & Learn and Hands-on Shiny Workshop – Nov 28th 11:45 am to 3 pm

Join us Wednesday, November 28 for a Lunch & Learn and Hands-on Shiny Workshop with Dr. Olga Scrivner, Research Scientist at Indiana University’s Cyberinfrastructure for Network Science Center. REGISTER

Olga Scrivner is a research scientist at Cyberinfrastructure for Network Science Center (CNS) in the School of Informatics, Computing, and Engineering at Indiana University, a faculty fellow at the Center of Excellence for Women in Technology, and a corporate faculty in Data Analytics at Harrisburg University of Science and Technology. She has substantive expertise in developing web application tools for data mining and visualization using Shiny and R. Her current research at CNS focuses on mapping of occupational landscape and educational attainment, with specific emphasis in understanding the healthcare workforce in the areas affected by opioid epidemic.

Wednesday November 28 in Langsam Library room 475  LUNCH WILL BE PROVIDED.


11:45AM – 1PM: LUNCH & LEARN – THE IMPORTANCE OF DATA VISUALIZATION
If a picture is worth of a thousand words, data visualization is worth millions: Toward a framework for actionable visual insights
Current shift in scientific landscape toward cross-disciplinary teams, evolving cyberinfrastructure and complex data requires a new kind of data analysis and visualization tools. This talk will introduce a visualization framework developed at Cyberinfrastructure for Network Science Center (CNS) at Indiana University, founded and directed by Professor Katy Börner, Victor H. Yngve Distinguished Professor of Engineering and Information Science (http://cns.iu.edu).


1PM – 3PM: BUILDING INTERACTIVE WEB APPLICATIONS: DATA VISUALIZATION WITH SHINY
This two hour hands-on workshop will step through the process of building, visualizing, deploying, and sharing Shiny web applications. Learning this workflow will enable you to build your own interactive tools that can be used for research and teaching.

How UC Researchers use the Open Science Framework – Theresa Culley, Head of Biological Sciences and Professor of Biology, Editor-in-Chief Applications in Plant Sciences

Researcher Name: Theresa Culley, Head of Biological Sciences and Professor of Biology, Editor-in-Chief Applications in Plant Sciences

In our fourth installment of the series “How UC Researchers use the Open Science Framework”, we hear from  Theresa Culley, Head of Biological Sciences and Professor of Biology, Editor-in-Chief Applications in Plant Sciences

 

Theresa Culley - 2018 Head of Biological Sciences

 

 

 

 

 

 

 

Research Project Description or statement about your research interest:

My research area in Botany focuses on plant population biology and genetics and I have a deep interest in the evolution of invasive species.  I am also very interested in publication patterns regarding research involving hotspot areas of biodiversity.  My lab has been considering the question of whether researchers from developing countries, which have the most biodiversity hotspots, receive adequate credit for their work.  We are currently working on a project examining publishing bias in the scientific literature about plant conservation genetics.  This collaboration is in partnership with UC Libraries’ Digital Scholarship Center and is one of several collaborations funded by a $900,000 Andrew W. Mellon Foundation awarded to the Center.  I am also interested in this topics in my role as Editor-in-Chief for Applications in Plant Sciences.

Why did you chose to use the OSF to organize your research/projects?

I am an advocate for data sharing and reproducible research.  In an editorial I wrote for Applications in Plant Sciences, I highlighted the many reasons to ensure access to data and major considerations behind why researchers may not want to share data.  A resource like the open science framework is an excellent tool for promoting transparency and reproducibility and advancing the field at an accelerated pace.  The OSF helps to manage the entire project and especially makes it easy to share data within our research group and with collaborators.  This is a great place to manage the active parts of a project, and link all the different tools that members of a research group use .  We also have the ability to archive data and content here and look forward to a possible integration into our Institutional Repository in the future.

What about the OSF makes this tool a good choice for your project management (i.e. specific function of the OSF)?

Some of my team members prefer to use Dropbox and some are using Box.  Using the OSF makes it possible to bring all the different tools we are using under one project umbrella.  And it helps us to track activity on the project.

Additional comment for the post that you are willing to share:

Currently our project is not public, but we hope to share components in the future.

The Center for Open Science has been a great resource for our lab and the journal Applications in Plant Sciences.  In August 2016, the journal adopted the TOP guidelines, along with its sister journal, American Journal of Botany.

Science Gateways’ presentation & lunch with Dr. Sandra Gesing Oct 30th

Please join the Data and Computational Science Series (DCSS) team for a (free!) ‘Understanding Science Gateways’ presentation & lunch with Dr. Sandra Gesing, Computational Scientist, University of Notre Dame.

Science Gateways and the Science Gateways Community Institute (SGCI) with Dr. Sandra Gesing

Tuesday October 30 – TUC 400B FREE REGISTRATION

 

 

 

 

 

Science Gateways – also called virtual research environments or virtual labs – allow science and engineering communities to access shared data, software, computing services, instruments and other resources specific to their disciplines and use them also in teaching environments. The U.S. Science Gateways Community Institute (SGCI) provides free resources, services, experts, and ideas for creating and sustaining science gateways.

11am-1pm: General Introduction to Science Gateways & the Science Gateways Community Institute (SGCI) – Lunch provided

1pm-3pm: Science Gateways Presentation On Usability With Hands-On Portion – please bring a laptop

These events are free and open to all.

FREE REGISTRATION

Flyer – DCS2 _Intro to Science Gateways_30oct18

Flyer – DCS2 _Science Gateways Usability presentation_30oct18

General Introduction to Science Gateways & the Science Gateways Community Institute (SGCI)
In the last decade mature complete science gateway frameworks have evolved such as HUBzero, Galaxy, Agave and Apache Airavata. Successful implementations have been adapted for several science gateways, for example, the technologies behind the science gateways CIPRES, which is used by over 25.000 users to date and serves the community in the area of large phylogenetic trees. Lessons learned from the last decade include that approaches should be technology agnostic, use standard web technologies or deliver a complete solution. Independent of the technology, the major driver for science gateways are the user communities and user engagement is key for successful science gateways. The US Science Gateways Community Institute (SGCI), opened in August 2016, provides free resources, services, experts, and ideas for creating and sustaining science gateways. It offers five areas of services to the science gateway developer and user communities: the Incubator, Extended Developer Support, the Scientific Software Collaborative, Community Engagement and Exchange, and Workforce Development. The talk will give an introduction to science gateways, examples for science gateways & an overview on the services offered by the SGCI to serve user communities & developers for creating successful science gateways.

Discover UCIT Research Computing Tools and Services

 

 

 

 

Jetstream Hands-on Workshop October 31st

Indiana University’s Jeremy Fischer will present a hands-on workshop on Jetstream, a free, cloud-based, on-demand high performance computing resource.
Please join IT@UC R&D and UCL on October 31 from 9:30am to 12:30pm in Langsam Library room 475 for a free workshop on Jetstream, the National Science Foundation’s first science and engineering cloud. With a focus on ease of use and broad accessibility, Jetstream is designed for those who have not previously used high performance computing and software resources.

Jetstream Core capabilities

  • Interactive virtual machines (VMs) – both a public library of preconfigured VMs and a private library with saved, personalized versions
  • Secure data movement using Globus Transfer
  • Virtual desktops for access from a tablet or laptop over a cellular network
  • Reproducible data analysis using digital object identifiers (DOIs) stored and published via IU’s digital archive

Workshops are open to anyone who interested in learning about Jetstream resources. There are no prerequisites for attending. Please bring a lap top.   REGISTER

Flyer: jetstream_oct_31

For additional information, contact Jane Combs at combsje@uc.edu.

After the workshop head to the Catskeller for the first Data Science Social from 4-6 pm.  Food provided through the Provost funded Data & Computational Science Series.  Drinks on you!

Videos from Research Reproducibility workshops now available

Many thanks to all who attended the UC Libraries and IT@UC  Research Reproducibility Workshops offered on Oct 3rd and 4th.  We are especially thankful to April Clyburne-Sherin, Director of Scientific Outreach for Code Ocean who came and shared her knowledge part of the Provost sponsored Data and Computational Science Series.  The videos from the workshop are available through the STRC youtube channel and at these links:

Oct 3rd – Video – Integrating reproducible best practices into biomedical & clinical research : https://www.youtube.com/watch?v=V_VBmFNXWg0 

Slides – http://bit.ly/2DToKHt

Oct 4th – Preparing your data and code for reproductive publication: https://youtu.be/TkQbtEYXuUA 

Slides – shorturl.at/iwDVY

Also many thanks to Jay Sinnard and Jace Cheeseman for capturing and creating the videos.  We are grateful for the talent and knowledge in the STRC!

If you want to discuss research reproducibility or other data related issues, please contact the UC Libraries Research and Data Services Team at ASKDATA@UC.EDU.  

How UC Researchers use the Open Science Framework – Karlynn BrintzenhofeSzoc, CAHS-School of Social Work, Associate Professor

In our third installment of the series “How UC Researchers use the Open Science Framework”, we hear from

Karlynn BrintzenhofeSzoc, CAHS-School of Social Work, Associate Professor

Karlynn Brintzenhofeszoc, CAHS-School of Social Work, Associate Professor

 

Research Project Description or statement about your research interest:

I am working with a group of trans-disciplinary researchers who focus on the current state of care for older adults with cancer.  It is well known that enrollment of older adults into cancer clinical trials is not proportional to the number of older adults who are diagnosed with and treated for cancer.  Further there is little known about how older patients who participated in clinical trials respond to treatments.  And we do not have a clear understanding of the many factors that affect their quality of life during treatment such as drug tolerance levels or best practices in coordinating their care.

Additionally, The American Society for Clinical Oncology (https://www.asco.org/) published a call to increase the recruitment of older adults into trials.  One of the main recommendations they made is that journals develop policies that would involve a better reporting system that would encourage data to be analyzed and reported by age groups on efficacy and adverse effects.  This change could improve clinical practice and likely improve the quality of life of older adults.

Our research project will take a snapshot of the literature and focus on Phase III therapeutic cancer clinical trials.  We are conducting a systematic review of the literature for the time frame of July 1 2016 to June 30 2017.  One of the data points we are gathering is inclusion and exclusion criteria which have an upper age cutoff.  Already we see in the literature that there is an inconsistency in age reporting.  Also, it is difficult to find reports where the results are stratified for older adults.  And in order to set best practices, we believe researchers need to pay more attention to older adults when reporting outcomes.

This group of researchers and clinicians are a part of the Cancer and Aging Research Group (mycarg.org) which is a national advocacy group that funds and supports research to provide better coordinated care for older adults with cancer.

Why did you chose to use the OSF to organize your research/projects?

We started off using another workflow to assign readings to reviewers and it was a disaster in record keeping.   We couldn’t figure out what articles had been assigned to reviewers, and if and when they had completed their assigned readings.

Then I discovered the Open Science Framework (through an email from the library) and switched to using the OSF.  It was very easy to transition our workflow to this system.  We could set up projects in the OSF, connect with the reviewers by inviting them to be collaborators, and share their tasks through the OSF.  We created files (or components in the OSF) for each person.  We loaded their reading assignments into the project and were able to track when they opened the files.  So we knew what was getting done and what still needed to be addressed.  It was very easy to use, especially for collaborators with virtually no training needed.  There was no angst or pain with the system.  It is also very easy to add and remove collaborators.

What about the OSF makes this tool a good choice for your project management (i.e. specific function of the OSF)?

I LOVE the notification features.  We can track that the work is being done by the reviewers assigned.  And it is easy to extract the data from a collection document in the OSF into our REDCap data management system.

Additional comment for the post that you are willing to share:

A second group of clinicians and researchers who are members of the Multinational Association of Supportive Care in Cancer (MASCC; mascc.org) are starting another project using the OSF.  A CARG clinicians, who is leading this second project that is looking at shared decision making with older adults with cancer, has also decided to use OSF for the project.

The OSF has a lot of potential.  I personally could use it more, but would want additional training to understand all the functionality of the OSF.  And I love that the platform is accessible anywhere.

Currently our project is only accessible to collaborators, but it will be easy to open components of the project if we choose or need to share some of our findings.

 

Bernstein, Shakespeare, Preservation Photographs and Dedicated Staff are All Featured in the Latest Issue of Source

source headerRead Source, the online newsletter, to learn more about the news, events, people and happenings in UC Libraries.

In this edition of Source we celebrate Leonard Bernstein at 100 with news of an exhibit on display in the Walter C. Langsam Library. Dean Xuemao Wang writes about how the occasion of the university’s upcoming Bicentennial has led him to reflect on the contributions of four staff members retiring this fall. We announce two grants received by the National Network of Libraries of Medicine that will promote good data and good health.

University archivist and head of the Archives and Rare Books Library Kevin Grace teaches readers and students in his honors class about Extra-Illustrated Editions. Jessica Ebert, lead photographic technician in the Preservation Lab writes about her work creating visual representations of the conservation treatments performed, and housing created, in the Lab. Mike Braunlin of the John Miller Burnam Classics Library offers his experience and insights gained working in the library for 42 years. The UC Foundation writes about a unique collection gifted to the Libraries from two former professors. Lastly, the annual Books by the Banks: Cincinnati USA Books Festival, of which UC Libraries is an organizing partner, is announced in this issue.

Read these articles, as well as past issues, on the web at http://libapps.libraries.uc.edu/source/ and via e-mail. To receive Source via e-mail, contact melissa.norris@uc.edu to be added to the mailing list.

How UC Researchers use the Open Science Framework – UC Center for Police Research and Policy

In our second installment of the series “How UC Researchers use the Open Science Framework”, we hear from Hannah McManus, Gabrielle Isaza, and Clair Green-Schwartz, Research Associates with the IACP / UC Center for Police Research and Policy 

Hannah McManus, Gabrielle Isaza, and Clair Green-Schwartz, Research Associates with the IACP / UC Center for Police Research and Policy

Research Project Description or statement about your research interest

The International Association of Chiefs of Police (IACP)/University of Cincinnati (UC) Center for Police Research and Policy engages in rigorous research that has practical implications for the field and is intended to serve as a national model for the way law enforcement agencies and researchers work together to help protect communities, safeguard citizens’ rights, and ensure the fair treatment of all individuals.

There is currently a gap between research and practice, and the IACP/UC Center for Police Research and Policy seeks to play an important role in closing that gap. Often times existing research does not provide actionable recommendations that can be easily translated into specific, practical policies and practices that could enhance policing. Moreover, academic researchers often do not have access to all the data that police departments have that is necessary to conduct rigorous and meaningful research on police practices. The goal of the IACP/UC Center for Police Research and Policy is to provide a path for law enforcement and researchers to work together on studies that can drive future practices and policies.

Why did you chose to use the OSF to organize your research/projects?

The IACP/UC Center for Police Research and Policy is funded by the Laura and John Arnold Foundation (LJAF). The LJAF is committed to funding research that meets the most rigorous standards of quality and transparency. As such, we make public our preregistration document for each project, which involves describing the research design in detail before the statistical analyses are performed. Further, we update the Center’s OSF profile as we gather more information on individual projects, and submit all applicable research materials onto the OSF for public viewing. At the end of our research projects, we include the findings either in the form of a written report or a link to a publication or preprint elsewhere. These findings must be freely available in some form, which removes the financial barriers that some may face when trying to access research. The Center’s OSF webpage thus provides a comprehensive overview of an entire research project from start to finish. And further, in the event that a research project does not lead to a peer-reviewed publication, posting the results at OSF serves a valuable informative purpose.

What about the OSF makes this tool a good choice for your project management (i.e. specific function of the OSF)?

The OSF is a useful web platform to centralize all parts of the project from initial idea to final results. It keeps a useful history of documents for us to track changes and progress over time. Ultimately, this tool is most useful in its ability to serve as a platform for transparency in research.

Please use this link for further detail about the Center for Police Research and Policy’s research projects:

https://osf.io/f2drv/

Rebecca Olson Joins UC Libraries as Business and Social Sciences Informationist

Today, Rebecca Olson joined UC Libraries as business and social sciences informationist. Rebecca has many years of experience as a law librarian. She was certified in 2018 in School Media from Southern Connecticut State University.  Prior to beginning her career in libraries, Rebecca received her MLS from Indiana University and her BA from the University of Connecticut.

Rebecca’s main responsibilities will be to develop and deliver innovative research and instructional services to the UC communities in business and the social sciences. She will work collaboratively with business and social science faculty and with UC Libraries faculty and staff to design, develop and implement a suite of cohesive services for faculty and students in business and the social sciences for data access, management and preservation.

Welcome to UC Libraries, Rebecca!