Tag Archives: reproducibility

Data Management, data science

Computational Reproducibility Pilot – Code Ocean Trial

A goal of Duke University Libraries (DUL) Code Ocean Logois to support the  growing and changing needs of the Duke research community. This can take many forms. Within Data and Visualization Services, we provide learning opportunities, consulting services, and computational resources to help Duke researchers implement their data-driven research projects. Monitoring and assessing new tools and platforms also helps DUL stay in tune with changing research norms and practices. Today the increasing focus on the importance of transparency and reproducibility has resulted in the development of new tools  and resources to help researchers produce and share more reproducible results. One such tool is Code Ocean.

Code Ocean is a computational reproducibility platform that employs Docker technology to execute code in the cloud. The platform does two key things—it integrates the metadata, code, data and dependencies into a single ‘compute capsule’, ensuring that the code will run—and it does this in a single web interface that displays all inputs and results. Within the platform, it is possible to develop, edit or download the code, run routines, and visualize, save or download output, all from a personal computer. Users or reviewers can upload their own data and test the effects of changing parameters or modification of the code. Users can also share their data and code through the platform. Code Ocean provides a DOI for all capsules facilitating attribution and a permanent connection to any published work.

In order to help us understand and evaluate the usefulness of the Code Ocean platform to the Duke research community, DUL will be offering trial access to the Code Ocean cloud-based computational reproducibility platform starting on October 1, 2018. To learn more about what is included in the trial access and to sign up to participate, visit the Code Ocean pilot portal page.

If you have any questions, contact askdata@duke.edu.

workshops

Announcing Tidyverse workshops for Winter 2018

Coming this winter the Data & Visualization Services Department will once again host a workshop series on the R programming language. Our spring offering is modeled on our well received R we having fun yet‽ (Rfun) fall workshop series. The four-part series will introduce R as a language for modern data manipulation by highlighting a set of tidyverse packages that enable functional data science. We will approach R using the free RStudio IDE, an intent to make reproducible literate code, and a bias towards the tidyverse. We believe this open tool-set provides a context that enables and reinforces reproducible workflows, analysis, and reporting.

This six-part series will introduce R as a language for modern data manipulation by highlighting a set of tidyverse packages that enable functional data science.

January Line-up

Title Date Registration Past Workshop
Intro to R Jan 19
1 – 3pm		 register Resources
R Markdown
with Dr. Çetinkaya-Rundel		 Jan 23
9am		 register
Shiny
with Dr. Çetinkaya-Rundel		 Jan 25
9am		 register
Mapping with R Jan 25
1-3pm		 register Resources
Reproducibility & Git Jan 29
1-3pm		 register Resources
Visualizationg with ggplot2 Feb 1
9:30-11:30am		 register Resources

An official announcement with links to registration is forthcoming. Feel free to subscribe to the Rfun or DVS-Announce lists. Or look to the DVS Workshop page for official registration links as soon as they are available.

Workshop Arrangement

This workshop series is intended to be iterative and recursive. We recommend starting with the Introduction to R. Proceed through the remaining three workshops in any order of interest.

Recordings and Past Workshops

We presented a similar version of this workshop series last fall and recorded each session whenever possible. You can stream past workshops and engage with the shareable data sets at your-own-pace (see the Past Workshop resources links, above.) Alternatively, all the past workshop resource links are presented in one listicle: Rfun recap.