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Save the Date

Save the Date! 

 

Thursday, November 7, 2019

The 2nd Carnegie Mellon University
Open Science Symposium at
Mellon Institute Library

 

 Join us for a day focused on the opportunities and challenges of practicing open science. The full day program will feature talks from guest speakers including researchers, tool developers, funders, and publishers, roundtable discussions, a poster session on research using open methods, and a collaboration networking reception. 

Watch our Open Science Symposium 2019 website for program updates and registration coming this summer.

Get in touch at openscience@andrew.cmu.edu. 
 

And check out last year’s Open Science Symposium. View the session recordings and slides.
 

#CMUOpenScience

 

Intro to Programming in R and Python

University Libraries is a member of the The Carpentries, a non-profit that teaches researchers basic programming and computing skills in R and Python. You can read more about our workshop series here and check out our calendar to look for future workshops.

OSF for Project Management, Collaboration, and Reproducible Research

Open Science Framework (OSF) is a free & open source project management web-based tool that is useful for:

  • organizing and managing research projects (projects can be private or public) in any discipline
  • viewing files that are stored across a number of platforms (i.e. DropBox, Google Drive, Box) in one place
  • sharing projects or parts of a project with collaborators
  • sharing conference materials
  • student projects
  • pre-registering a study
  • publishing a pre-print

 

CMU now has an institutional license for OSF. Use your Andrew email address to sign-up for OSF to take advantage of our institutional benefits including:

  • the ability to showcase your project on our CMU landing page if you choose
  • single sign-on
  • increased security

 

If you are interested in learning more about OSF or need help, you can read our OSF guide or contact CMU's OSF coordinators: Melanie Gainey (mgainey@andrew.cmu.edu) and Ana Van Gulick (anavangulick@cmu.edu).

 

Recent Workshop Materials

Click here to see the sample OSF project from our Open Science Framework workshop on May 4th, 2018. You can find help for creating a project in Open Science Framework here
 
Click here to see all of the tips and tools we highlighted in our workshop, Survival guide for grad students and postdocs: tips and tools for productive research, on March 2nd, 2018.

Supercomputing Resources

Bridges: A new approach to supercomputing

Through the Pittsburgh Supercomputing Center, CMU researchers have free access to Bridges, an NSF-funded supercomputer designed to enable a wide variety of research communities, including those that may not have a lot of experience with programming and do not typically use supercomputers.

Bridges can be used for analysis in a variety of fields including genomics, neuroscience, and machine learning and can be used with familiar, widely-used software such as R, MATLAB, and Python.

‚ÄčTo find out if Bridges is right for you or to request access, follow the "Apply Now" link at Pittsburgh Research Computing Initiative or email bridges@psc.edu.

 

New Institutional License for protocols.io

Supported by the University Libraries, protocols.io is an open source repository for scientists to record and share detailed up-to-date protocols for research and teaching purposes.  Carnegie Mellon University members can access their free Premium account by verifying their CMU email address. 

 

  • Protocols.io supports sharing protocols within a lab. This helps research groups organize their methods and ensures that knowledge is not lost as students and postdocs move on. 

 

  • Protocols.io supports reproducible research. All protocols are dynamic and interactive, can be shared privately and publicly, and support transparency and reuse.   

 

  • Protocols.io supports sharing protocols within methods courses. This helps students to follow instructions precisely, stay organized, and have the opportunity to interact with class content online. 

 

For more information on protocols.io, please visit our webpage: library.cmu.edu/protocols 

 
For additional support contact our research data services team: ul-dataservices@andrew.cmu.edu 

AIDR Conference at CMU

Supported by the NSF scientific data reuse initiative, AIDR (Artificial Intelligence for Data Discovery and Reuse) 2019 brought together researchers to discuss applications of AI/ML to challenges related to the discovery, reuse and management of data across disciplinary domains

You can access the conference slides and posters on F1000 here.

Stay in touch with other participants and join discussions at the AIDR mailing list. 
 
To post: send email to aidr-all@lists.andrew.cmu.edu 

 

Tool Spotlight

Do you use antibodies in your research? If so, you might want to check out the free tool, BenchSci.

BenchSci is a free online platform designed to help scientists find antibodies from publications. Their proprietary machine-learning algorithm was trained by PhD-level scientists to identify and understand the usage of commercial antibodies in the research literature.

When searching for a specific protein target, BenchSci curates published data in the form of figures to simplify the literature search process. The figures can then be filtered by specific experimental contexts cited in the paper such as techniques, tissue, cell lines, and more, to help users pinpoint antibodies that have been published under experimental conditions matching their study interest.
 
Registration is free to all scientists with an institutional email address. Register here. 
 
For more information about BenchSci, please refer to this article: https://blog.benchsci.com/7-features-to-find-antibodies
 
 

Biological Sciences Librarian

Melanie Gainey's picture
Melanie Gainey
Contact:
Mellon Library
4th Floor Mellon Institute
412-268-3171

Bioinformatics & Computational Biology

Huajin Wang's picture
Huajin Wang
Contact:
Mellon Institute Library
4th Floor Mellon Institute
412.268.3172
Website