Publications by rOpenSci - open tools for open science
Synthesizing population time-series data from the USA Long Term Ecological Research Network
Introduction The availability of large quantities of freely available data is revolutionizing the world of ecological research. Open data maximizes the opportunities to perform comparative analyses and meta-analyses. Such synthesis efforts will increasingly exploit “population data”, which we define here as time series of population abundance...
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2 Months in 2 Minutes – rOpenSci News, August 2019
rOpenSci HQ rOpenSci received a $678K award from the Sloan Foundation to expand Software Peer Review. We are hiring for a new position in statistical software testing and peer review. Join our next Community Call on Reproducible Workflows at Scale with drake September 24th. Videos, speakers’ slides, resources and collaborative notes from our C...
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Introducing Open Forensic Science in R
The free online book Open Forensic Science in R was created to foster open science practices in the forensic science community. It is comprised of eight chapters: an introduction and seven chapters covering different areas of forensic science: the validation of DNA interpretation systems, firearms analysis of bullets and casings, latent fingerpri...
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Using rOpenSci Software Peer Review Guidelines for Teaching
Teaching collaborative software development In the University of British Columbia’s Master of Data Science program one of the courses we teach is called Collaborative Software Development, DSCI 524. In this course we focus on teaching how to exploit practices from collaborative software development techniques in data scientific workflows. This ...
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UCSCXenaTools: Retrieve Gene Expression and Clinical Information from UCSC Xena for Survival Analysis
The UCSC Xena platform provides an unprecedented resource for public omics data from big projects like The Cancer Genome Atlas (TCGA), however, it is hard for users to incorporate multiple datasets or data types, integrate the selected data with popular analysis tools or homebrewed code, and reproduce analysis procedures. To address this issue, w...
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citecorp: working with open citations
citecorp is a new (hit CRAN in late August) R package for working with data from the OpenCitations Corpus (OCC). OpenCitations, run by David Shotton and Silvio Peroni, houses the OCC, an open repository of scholarly citation data under the very open CC0 license. The I4OC (Initiative for Open Citations) is a collaboration between many parties, wit...
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Updates to the rOpenSci image suite: magick, tesseract, and av
Image processing is one of the core focus areas of rOpenSci. Over the last few months we have released several major upgrades to core packages in our imaging suite, including magick, tesseract, and av. This post highlights a few cool new features. Magick 2.2 The magick package is one of the most powerful packages for image processing in R. It int...
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rOpenSci Dev Guide 0.3.0: Updates
As announced in February, we now have an online book containing all things related to rOpenSci software review. Our goal is to update it approximately quarterly – it’s time to present the third version. You can read the changelog or this blog post to find out what’s new in our dev guide 0.3.0! Updates to our policies and guidance Scope We�...
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cran checks API: an update
If you have an R package on CRAN, you probably know about CRAN checks. Each package on CRAN, that is not archived on CRAN1, has a checks page, like this one for ropenaq: https://cloud.r-project.org/web/checks/check_results_ropenaq.html The table above is results of running R CMD CHECK on the package on a combination of different operating system...
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What are Your Use Cases for rOpenSci Tools and Resources?
We want to know how you use rOpenSci packages and resources so we can give them, their developers, and your examples more visibility. It’s valuable to both users and developers of a package to see how it has been used “in the wild”. This goes a long way to encouraging people to keep up development knowing there are others who appreciate and...
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