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Preparing your data and code for reproducible publication - University of California, Berkeley

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Preparing your data and code for reproducible publication - University of California, Berkeley


Computational analyses are playing an increasingly central role in research. Journals, funders, and other researchers are calling for published research to include associated data and code. However, many researchers have not received training in best practices and tools for sharing code and data.

This is a step-by-step, practical workshop to prepare your research code and data for computationally reproducible publication. The workshop starts with some brief introductory information about computational reproducibility, but the bulk of the workshop is guided work with code and data. We cover the basic best practices for publishing code and data. Participants move through best practices for organizing their files, preparing their code for reuse, documentation, and submitting their code and data to share using Code Ocean.

Sponsored by BIDS, Research IT, and the Berkeley Library.

Prerequisites: Participants should bring their own data, code, and laptop.

Audience: Researchers who use code in their research and wish to share it.

Workshop goals:


Learn best practices for file organization, documentation, automation, and dissemination.

Assess possible tools for publishing code and data.

Submit your code and data for publishing on Code Ocean.


Location: Berkeley Institute of Data Science (BIDS), 190 Doe Library

A Lunch & Learn demonstrating the Code Ocean platform will precede the workshop from 12-1pm. RSVP for the Lunch & Learn here:  https://www.eventbrite.com/e/code-ocean-lunch-learn-university-of-california-berkeley-tickets-54721185539.

Speaker: 

April Clyburne-Sherin is an epidemiologist, methodologist, and expert in open science tools, methods, training, and community stewardship. She holds an MS in Population Medicine (Epidemiology). Since 2014, she has focussed on creating curriculum and running workshops for scientists in open and reproducible research methods (Center for Open Science, Sense About Science, SPARC) and is co-author of FOSTER's Open Science Training Handbook. In her current role as Director of Scientific Outreach at Code Ocean, she trains scientists in computational reproducibility best practices.



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