What is restez? R packages for interacting with the National Center for Biotechnology Information (NCBI) have, to-date, depended on API query calls via NCBI’s Entrez.For computational analyses that require the automated look-up of reams of biological sequence data, piecemeal querying via bandwith-limited requests is evidently not ideal.
Although there are increasing incentives and pressures for researchers to share code (even for projects that are not essentially computational), practices vary widely and standards are mostly non-existent. The practice of reviewing code then falls to researchers and research groups before publication.
Antarctic/Southern Ocean science and rOpenSci Collaboration and reproducibility are fundamental to Antarctic and Southern Ocean science, and the value of data to Antarctic science has long been promoted. The Antarctic Treaty (which came into force in 1961) included the provision that scientific observations and results from Antarctica should be openly shared.
While many people groan at the thought of participating in a group ice breaker activity, we’ve gotten consistent feedback from people who have been to recent rOpenSci unconferences. We’ve had lots of requests for a detailed description of how we do it. This post shares our recipe, including a script you can adapt, a reflection on its success, examples of how others have used it, and some tips to remember.
rOpenSci’s software engineer / postdoc Jeroen Ooms will explain what images are, under the hood, and showcase several rOpenSci packages that form a modern toolkit for working with images in R, including opencv, av, tesseract, magick and pdftools. 🕘 Thursday, November 15, 2018, 10-11AM PST; 7-8PM CET (find your timezone) ☎️ Find all details for joining the call on our Community Calls page.Everyone is welcome.
Every R package has its story. Some packages are written by experts, some bynovices. Some are developed quickly, others were long in the making. This is thestory of jstor, a package which I developed during my time as a student ofsociology, working in a research project on the scientific elite withinsociology.
Do you have code that accompanies a research project or manuscript? How do you review and archive that code before you submit a paper? Our next Community Call will present different perspectives on this hot topic, with plenty of time for Q&A.What’s the culture of the group around feedback and code collaboration?What are the use cases?What are some practices that can adopted?
Background Surveys are ubiquitous in the social sciences, and the best of them are meticulously planned out. Statisticians often decide on a sample size based on a theoretical design, and then proceed to inflate this number to account for “sample losses”. This ensures that the desired sample size is achieved, even in the presence of non-response.
Hundreds of thousands of people in east Africa have been displaced and hundreds have died as a result of torrential rains which ended a drought but saturated soils and engorged rivers, resulting in extreme flooding in 2018.This post will explore these events using the R package smapr, which provides access to global satellite-derived soil moisture data collected by the NASA Soil Moisture Active-Passive (SMAP) mission and abstracts away some of
You can find members of the rOpenSci team at various meetings and workshops around the world. Come say ‘hi’, learn about how our software packages can enable your research, or about our process for open peer software review and onboarding, how you can get connected with the community or tell us how we can help you do open and reproducible research.Where’s rOpenSci?
