R-bloggers

rOpenSci News Digest, July 2025

July 22, 2025 | rOpenSci - open tools for open science

Dear rOpenSci friends, it’s time for our monthly news roundup! You can read this post on our blog. Now let’s dive into the activity at and around rOpenSci! rOpenSci HQ Open Science with a Latin American Identity: Meet the New Cohort of... [Read more...]

Trend-Anomaly Analysis of U.S. Federal Budget Balance

July 22, 2025 | Selcuk Disci

According to the Trend-Anomaly chart, after the liberation day tariffs, the U.S. Federal Budget Balance has recovered from the extremely high level deficit. Source code:

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Numbers of the Beast: Sasquatch Distribution Modelling

July 21, 2025 | moth

The third OII Halloween Lecture sinks bodily into the tortured mass of data concerning cryptozoological sightings in North America. Drawing on over a century of shadow-haunted sightings documenting the curiously repellant presence of the North America Sasquatch, or Bigfoot, we aim to identify the factors associated with its presence, delineate ... [Read more...]

Testing your Plumber APIs from R

July 19, 2025 | jakub::sobolewski

Learn how to effectively test your Plumber APIs in R using a two-layer testing strategy that separates business logic from API contracts. [Read more...]

Tagging Bioconductor packages with EDAM

July 17, 2025 | Vince Carey

Introduction The EDAM ontology is used to provide conceptual organization of resources in major initiatives like ELIXIR bio.tools and Galaxy. Bioconductor’s methods and data are tagged using an ad hoc terminologic hierarchy called biocViews. In...

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Organizing R development using srcpkgs

July 17, 2025 | Karl Forner

Overview This is an introduction on organizing R projects using source packages (powered by my R package srcpkgs). It is based on notes for a talk I have on 2024-05-27 for the Swiss Institute of Bioinformatics Vital-IT group Analysts meeting. T... [Read more...]

Testing Legacy Shiny Apps: Start with Behavior, Not Code

July 15, 2025 | jakub::sobolewski

Adding acceptance tests first makes refactoring safer. [Read more...]

R Package Quality: Maintainer Criteria

July 15, 2025 | The Jumping Rivers Blog

This is final part of a five part series of related posts on validating R packages. Other posts in the series are: Validation Guidelines Package Popularity Package Documentation Code Quality Maintenance (this post) At last we come to the final ...

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Repost: Tidy RAG in R with ragnar

July 15, 2025 | Stephen Turner

Reposted from the original at: https://blog.stephenturner.us/p/tidy-rag-in-r-with-ragnarRetrieval augmented generation in R using the ragnar package. Demonstration: scraping text from relevant links on a website and using RAG to ask about a unive...

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With help from LLMs (e.g. Deepseek) ! an R function that filters a list of vectors using indices from the unlisted data

July 15, 2025 | Di Cook

Upon users' query, language learning models like ChatGPT and Deepseek can generate useful programming codes having been trained on many codes and texts available on the Internet. However, at least according to my experience the generated sc...

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From Model to Meaning: How to use the marginaleffects R package to interpret results from statistical or machine learning models workshop

July 14, 2025 | Dariia Mykhailyshyna

Join our workshop on From Model to Meaning: How to use the marginaleffects R package to interpret results from statistical or machine learning models, which is a part of our workshops for Ukraine series! Here’s some more info: Title: From Model to Meaning: How to use the marginaleffects R ... [Read more...]

Nested Forecasting: Analyzing the Relationship Between the Dollar and Stock Market Trends

July 14, 2025 | Selcuk Disci

The prevailing opinion is that because countries are exporting more goods to the US than it exports to them, resulting in a trade deficit. In return for their exports, these countries receive US dollars, which they often use to purchase US government bonds and stocks. Over time, this process contributes ...

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Benchmarking memory usage in R

July 13, 2025 | Jan Gorecki

Benchmarking memory usage in R Profiling memory in R has never been a trivial task. In this post, I would like to emphasize that currently popular methods are quite inaccurate and should therefore be used with caution. More importantly, they sh...

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What We Learned from Our First Data Science for Open WASH Data Course

July 13, 2025 | Adriana Clavijo Daza

A Global Response to a Critical Need 🌍 When we launched the first Data Science for Open WASH Data (ds4owd) course in October 2023, 235 WASH professionals from 46 countries around the world signed up—validating our belief that this community is ...

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A modern introduction to probability and statistics [book review]

July 11, 2025 | xi'an

In the plane to Bengaluru, I read through the book A modern introduction to probability and statistics, by Graham Upton—whose Measuring Animal Abundance I reviewed for CHANCE a while ago—, which is based on the earlier Understanding Statistics, written jointly with Ian Cook. (Not to be confused with A ...

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Apply the Dracula Theme to Quarto Websites

July 11, 2025 | Boyd Tarlinton

I am something of a Dracula theme fanatic. After first discovering the open-source theme in RStudio, I had to see if it was supported by other applications. To my delight, I found custom Dracula themes for over 400 applications. Applying these th... [Read more...]

Exploring R and Rust in Bioinformatics – Online Developer Forum, 28 July 2025

July 10, 2025 | Lluís Revilla Sancho

Join us for an open developer forum exploring how R and Rust can work together in bioinformatics and Bioconductor development. Organised and hosted by Lluís Revilla (Bioconductor Community Advisory Board), this online session will discuss techn...

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How to choose an IDE

July 10, 2025 | R on Nicola Rennie

When it comes to choosing an IDE to install there are lots of different choices out there, each with different pros and cons. This blog post isn’t about recommending or endorsing any specific IDE, but more about what questions you might want to a...

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R Package Quality: Code Quality

July 10, 2025 | The Jumping Rivers Blog

This is part four of a five part series of related posts on validating R packages. Other posts in the series are: Validation Guidelines Package Popularity Package Documentation Code Quality (this post) Maintenance In this post, we’ll take...

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Standard Deviation vs. Standard Error: Meaning, Misuse, and the Math Behind the Confusion

July 10, 2025 | M. Fatih Tüzen

The left side illustrates standard deviation as the spread of individual data values around the population mean (μ). The right side shows standard error as the variability in sample means (x̄) obtained from repeated sampling. Notice how the S...

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