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Analysing the HIV pandemic, Part 4: Classification of lab samples

May 22, 2019
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Analysing the HIV pandemic, Part 4: Classification of lab samples

Andrie de Vries is the author of “R for Dummies” and a Solutions Engineer at RStudio Phillip (Armand) Bester is a medical scientist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa In this post we complete our series on analysing the HIV pandemic in Africa. Previously we...

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Analysing the HIV pandemic, Part 3: Genetic diversity

May 15, 2019
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Analysing the HIV pandemic, Part 3: Genetic diversity

Phillip (Armand) Bester is a medical scientist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa Andrie de Vries is the author of “R for Dummies” and a Solutions Engineer at RStudio Recap In part 2 of this series, we discussed the PhyloPi pipeline for conducting routine HIV phylogenetics...

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Virtual Morel Foraging with R

May 12, 2019
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Virtual Morel Foraging with R

Bryan Lewis is a mathematician, R developer and mushroom forager.                               Morchella Americana by Bryan W. Lewis, see https://ohiomushroomsociety.wordpress.com/ It’s that time of year again, when people in the Midwestern US go nuts for morel mushrooms. Although fairly common in Western Pennsylvania, Ohio, Indiana, Illinois, Wisconsin, and, especially, Michigan1, they can still be tricky to find due to the vagaries of weather and mysteries...

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Analysing the HIV pandemic, Part 2: Drug resistance testing

May 6, 2019
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Analysing the HIV pandemic, Part 2: Drug resistance testing

Phillip (Armand) Bester is a medical scientist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa Dominique Goedhals is a pathologist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa Andrie de Vries is the...

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Analysing the HIV pandemic, Part 1: HIV in sub-Sahara Africa

April 29, 2019
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Analysing the HIV pandemic, Part 1: HIV in sub-Sahara Africa

Phillip (Armand) Bester is a medical scientist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa Sabeehah Vawda is a pathologist, researcher, and lecturer at the Division of Virology, University of the Free State, and National Health Laboratory Service (NHLS), Bloemfontein, South Africa Andrie de Vries is the...

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March 2019: “Top 40” New CRAN Packages

April 25, 2019
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March 2019: “Top 40” New CRAN Packages

By my count, two hundred and thirty-three packages stuck to CRAN last month. I have tried to capture something of the diversity of the offerings by selecting packages in ten categories: Computational Methods, Data, Machine Learning, Medicine, Science, Shiny, Statistics, Time Series, Utilities, and Visualization. The Shiny category contains packages that expand on Shiny capabilities, not just packages that...

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A Few Old Books

April 24, 2019
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Greg Wilson is a data scientist and professional educator at RStudio. My previous column looked at a few new books about R. In this one, I’d like to explore a few books about programming that people coming from data science backgrounds may not have stumbled upon. The first is Michael Nygard’s Release It!, which more than lives up to its subtitle,...

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Reproducible Environments

April 21, 2019
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Reproducible Environments

Great data science work should be reproducible. The ability to repeat experiments is part of the foundation for all science, and reproducible work is also critical for business applications. Team collaboration, project validation, and sustainable products presuppose the ability to reproduce work over time. In my opinion, mastering just a handful of important tools will make reproducible work in R much easier for data...

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Setting up RStudio Server on a Cloud for Collaboration and Reproducibility

April 16, 2019
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Setting up RStudio Server on a Cloud for Collaboration and Reproducibility

Roland Stevenson is a data scientist and consultant who may be reached on Linkedin. When setting up R and RStudio Server on a cloud Linux instance, some thought should be given to implementing a workflow that facilitates collaboration and ensures R project reproducibility. There are many possible workflows to accomplish this. In this post, we offer an “opinionated” solution based...

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On Meeting Data Journalists

April 7, 2019
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On Meeting Data Journalists

“I’d rather do data than date”. I overheard this while eavesdropping on a conversation among three female data journalists while waiting for an elevator at the IRE-CAR (Investigative Reporters and Editors - Computer-Assisted Reporting) conference last month. I would like to think the remark was overloaded with hyperbole, but maybe not. Most of the attendees as this conference were...

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