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Data Carpentry workshop hosted by BiSA

The UD Bioinformatics Student Association (BiSA) hosted a Data Carpentry workshop on March 29-30. Data Carpentry is a two-day workshop on key concepts, skills, and tools for managing and working with data. They provide a variety of domain-specific curriculums including ones that focus on genomics (taught during this workshop), ecology, and geospatial data (http://www.datacarpentry.org/lessons/). There were approximately 30 attendees including graduate students and faculty from UD’s bioinformatics, biology, biochemistry, geology, animal sciences, and plant and soil sciences programs of study as well as an attendee from Delaware State University.

Instruction involved both tutorials and hands-on exercises. Topics covered included data manipulation and visualization in R, connecting to the Amazon cloud, using the UNIX command line environment, an introduction to shell scripting, and best practices in data management. The topics were taught by going through two important bioinformatics problems, sequence read quality control and variant calling, illustrating the relevance and usefulness of the covered skills.

The workshop was a success thanks to funding from the UD professors, Dr. Carl Schmidt and Dr. Cathy Wu, and the great instruction provided by the data carpentry teachers, Pariksheet Nanda and Rebecca Love. We would also like to say thank you to Erin Bernberg for giving a tour of DBI’s sequencing facilities and to Karol Miaskiewicz for giving a presentation on the computing resources provided by UD’s Center of Bioinformatics and Computational Biology (CBCB).

The BiSA administrators (President Irem Celen, Vice President Modupe Adetunji, Secretary Madolyn MacDonald, and Treasurer Mengxi Lv) organized the workshop.

Visit http://www.datacarpentry.org/ to learn more about Data Carpentry.

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