Researchers from the UW’s eScience Institute, New York University Center for Data Science and Berkeley Institute for Data Science (BIDS) have authored a new book titled The Practice of Reproducible Research. Representatives from the three universities, all Moore-Sloan Data Science Environments partners, joined on January 27, 2017, at a symposium hosted by BIDS. There, speakers discussed the book’s content, including case studies, lessons learned and the potential future of reproducible research practices.
The rate of progress in human neurosciences is limited by the inability to easily apply a wide range of analysis methods to the plethora of different datasets acquired in labs around the world. In this work, we introduce a framework for creating, testing, versioning and archiving portable applications for analyzing neuroimaging data organized and described in compliance with the Brain Imaging Data Structure (BIDS). The portability of these applications (BIDS Apps) is achieved by using container technologies that encapsulate all binary and other dependencies in one convenient package. BIDS Apps run on all three major operating systems with no need for complex setup and configuration and thanks to the richness of the BIDS standard they require little manual user input. Previous containerized data processing solutions were limited to single user environments and not compatible with most multi-tenant High Performance Computing systems. BIDS Apps overcome this limitation by taking advantage of the Singularity container technology. As a proof of concept, this work is accompanied by 22 ready to use BIDS Apps, packaging a diverse set of commonly used neuroimaging algorithms.
JoVE, the leading creator and publisher of video solutions that increase productivity in scientific research and education, today announced 2017 plans to mark the Company’s 10th anniversary. This year-long initiative will include the introduction of new Engineering and the Physical Sciences Collections within JoVE Science Education. JoVE will launch ten major initiatives, including a new JoVE Unlimited pricing formula, enhanced web experience, and establish a number of grants to advance scientific research and education.
Similarities between incentives in science and incentives in finance suggest a solution to crises in both. Published in the Feb 2017 print edition of Physics World magazine (physicsworld.com).
This symposium will serve as the launch event for our new open, online book, titled The Practice of Reproducible Research. The book contains a collection of 31 case studies in reproducible research practices written by scientists and engineers working in the data-intensive sciences. Each case study presents the specific approach that the author used to achieve reproducibility in a real-world research project, including a discussion of the overall project workflow, major challenges, and key tools and practices used to increase the reproducibility of the research.
The first results from the Reproducibility Project: Cancer Biology suggest that there is scope for improving reproducibility in pre-clinical cancer research.