Rogue Scholar Posts

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Published in GigaBlog

GigaBlog is now archived in Rogue Scholar, a new service that provides what it calls “science blogging on steroids” through including full-text search, long-term archiving, DOIs and metadata for science blogs such as ours. While this July we celebrated the 11 th anniversary of the launch of our first articles at ISMB in Lyon, it was actually the 12 th anniversary of the launch of GigaBlog, the blog of GigaScience

Published in GigaBlog

At GigaScience we see more and more of our published papers use computational workflows, as they provides researchers easy access to high-quality analysis methods without the requirement of computational expertise. However, systems are needed to enable the sharing of these workflows in a reusable form.

Published in rOpenSci - open tools for open science
Author Pachá (aka Mauricio Vargas Sepúlveda)

Summary This post is about the surprising uses I’ve noticed and the questionsabout the censo2017 R package, a tool foraccessing the Chilean census 2017 data, I’ve gotten since it was peer-reviewedthrough rOpenSci one year ago.

Published in rOpenSci - open tools for open science
Author Pachá (aka Mauricio Vargas Sepúlveda)

Summary censo2017 is an R package designed toorganize the Redatam 1 filesprovided by the Chilean National Bureau of Statistics (Instituto Nacional deEstadísticas de Chile in spanish) in DVD format 2 . This package was inspiredby citesdb(Noam Ross, 2020) and taxadb(Carl Boettiger et al, 2021).This post is about thispackage, the problem it solves, how to use it, and the fact that the package andits review process were all

Published in GigaBlog

GigaScience Press and River Valley Technologies, with the help of Stencila, launch their first interactive Executable Research Article from their new scientific journal, GigaByte.

Published in rOpenSci - open tools for open science

Make 1 -like pipelines enhance the integrity, transparency, shelf life, efficiency, and scale of large analysis projects.With pipelines, data science feels smoother and more rewarding, and the results are worthy of more trust. …looking to get your project/s organised in the new year? hoping just to distract from feelings of impending doom/crushing loss of hope?

Published in rOpenSci - open tools for open science

osfr provides a ( hopefully ) convenient R interface to OSF (Open Science Framework, https://www.osf.io), a free service for managing research developed by the Center for Open Science (COS). osfr completed its rOpenSci peer-review earlier this year and has been available on CRAN since February.

Published in rOpenSci - open tools for open science

To the uninitiated, software testing may seem variously boring, daunting or bogged down in obscure terminology. However, it has the potential to be enormously useful for people developing software at any level of expertise, and can often be put into practice with relatively little effort. Our 1-hour Call will include two speakers and at least 20 minutes for Q &

Ambitious workflows in R, such as machine learning analyses, can be difficult to manage. A single round of computation can take several hours to complete, and routine updates to the code and data tend to invalidate hard-earned results. You can enhance the maintainability, hygiene, speed, scale, and reproducibility of such projects with the drake R package.