R Weekly Highlights

Bringing tidy principles to a fundamental visualization for gene expressions, being on your best "behavior" for organizing your tests, and how data.table stacks up to DuckDB and polars for reshaping your data layouts.
Episode Links

• This week's curator: Jon Carroll - @[email protected] (Mastodon) & @carroll_jono (X/Twitter)
• Exploring the tidyHeatmap R package
• Don't Expect That "Function Works Correctly", Do This Instead
• Comparing data.table reshape to duckdb and polars
• Entire issue available at rweekly.org/2024-W43

Supplement Resources

• tidyHeatmap: Draw heatmap simply using a tidy data frame https://stemangiola.github.io/tidyHeatmap/
• Novel App knock-in mouse model shows key features of amyloid pathology and reveals profound metabolic dysregulation of microglia https://molecularneurodegeneration.biomedcentral.com/articles/10.1186/s13024-022-00547-7
• Shiny App-Packages chapter on writing tests and specifications https://mjfrigaard.github.io/shiny-app-pkgs/test_specs.html
• WANT CLEANER UNIT TESTS? TRY ARRANGE, ACT, ASSERT COMMENTS https://jakubsob.github.io/blog/want-cleaner-test-try-arrange-act-assert/
• Super Data Science Podcast 827: Polars: Past, Present and Future, with Polars Creator Ritchie Vink https://www.superdatascience.com/podcast/827
• duckplyr: A DuckDB-backed version for dplyr https://duckplyr.tidyverse.org/

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @[email protected] (Mastodon) and @mike_ketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Black Feathers in the Sky - Kid Icarus: Uprising - MkVaff - https://ocremix.org/remix/OCR04200
• Cross-Examination - Phoenix Wright: Ace Attorney - PrototypeRaptor - https://ocremix.org/remix/OCR01846

A helpful way to organizing your growing collection of unit tests, how interfacing with LLMs just got easier in the R ecosystem, and a clever use of AI to summarize a large collection of blog posts.

Episode Links

• This week's curator: Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
• Nested unit tests with testthat
• shinychat: Chat UI component for Shiny for R
• Creating post summary with AI from Hugging Face
• Entire issue available at rweekly.org/2024-W42

Supplement Resources

• elmer: Call LLM APIs from R https://hadley.github.io/elmer/
• Joe Cheng's sidebot app (R edition) https://github.com/jcheng5/r-sidebot
• EDA Reimagined in R: GWalkR + DuckDB for Lightning-Fast Visualizations https://medium.com/@bruceyu0416/eda-reimagined-in-r-gwalkr-duckdb-for-lightning-fast-visualizations-05b011e8ae39
• Apache superset https://superset.apache.org/
• Postprocessing is coming to tidymodels https://www.tidyverse.org/blog/2024/10/postprocessing-preview/

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @[email protected] (Mastodon) and @mike_ketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Pachelbel's Ganon - The Legend of Zelda: Ocarina of Time - djpretzel - https://ocremix.org/remix/OCR00753
• Voodoo, Roots 'n Grog - The Secret of Monkey Island - Alex Jones, Diggi Dis - https://ocremix.org/remix/OCR02180

A monumental achievement for bringing the Nix package manager to reproducible data science, travelling deep through the in-place modification rabbit hole across multiple languages, and a sampling of sage advice from the Data Science Hangout.
Episode Links

• This week's curator: Tony Elhabr - @[email protected] (Mastodon) & @TonyElHabr (X/Twitter)
• Reproducible data science with Nix, part 13 -- {rix} is on CRAN!
• In-Place Modifications
• Data Career Insights: Lessons from four senior leaders in the data space
• Entire issue available at rweekly.org/2024-W40

Supplement Resources

• rix rOpenSci review: https://github.com/ropensci/software-review/issues/625
• Determinate Systems Zero to Nix guide https://zero-to-nix.com/ 
• vec - A new vector class with added functionality https://jonocarroll.github.io/vec/
• rray - Simple arrays https://rray.r-lib.org/
• Libby Heeren's podcast Data Humans https://libbyheeren.com/podcast.html or https://datahumans.libsyn.com/site
• A Bayesian Plackett-Luce model in Stan applied to pinball championship data https://sumsar.net/blog/bayesian-plackett-luce-model-pinball-competition/
•  Cover and modify, some tips for R package development https://masalmon.eu/2024/09/24/cover-modify-r-packages/

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Torvus Clockwork - Metroid Prime 2: Echoes - DarkeSword - https://ocremix.org/remix/OCR01507
• Home is Where You Belong - Final Fantasy IX - Reuben Spears, Earth Kid - https://ocremix.org/remix/OCR04135

How the latest release of patchwork is saving a cozy space for gt tables, a new package in the ggplot2 ecosystem to lend a guide for your guides, and a prime way of using R to brute-force the answer to a mathematical brain-teaser.
Episode Links

• This week's curator: Tony Elhabr - @[email protected] (Mastodon) & @TonyElHabr (X/Twitter)
• patchwork 1.3.0
• {gguidance}: Extended guide options for 'ggplot2'
• Prime numbers as sums of three squares. by @ellis2013nz
• Entire issue available at rweekly.org/2024-W39

Supplement Resources

• gt 0.11.0 release notes https://gt.rstudio.com/news/index.html#gt-0110
• Being free from constraint https://www.data-imaginist.com/posts/2024-01-05-patchwork-1-2-0/#being-free-from-constraint
• gguidance: A guided tour vignette https://teunbrand.github.io/gguidance/articles/tour.html
• Create a free Llama 3.1 405B-powered chatbot on an R package's GitHub repo in <1 min https://blog.stephenturner.us/p/create-a-free-llama-405b-llm-chatbot-github-repo-huggingface
• Ease renv::restore() by updating your repository to Posit Public Package Manager https://www.pipinghotdata.com/posts/2024-09-16-ease-renvrestore-by-updating-your-repositories-to-p3m

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Smoke & Marbles - Castlevania: Symphony of the Night - Emunator, ZackParrish, Lucas Guimaraes - https://ocremix.org/remix/OCR04714
• See Me Again - Valis III - tibonev - https://ocremix.org/remix/OCR04610

Hide a picture of Homer Simpson in a residual plot of all places? Oh it's real, you could say "surreal!" Plus a data-driven approach to investigate recent changes to the Australian census, and a cautionary reminder to check just where those numbers are coming from the next time you build a prediction model.

Plus the quest to make R the official language for the Coder Radio program reaps a new reward!


Episode Links

• This week's curator: Ryo Nakagawara - @Rby[email protected] (Mastodon) & @RbyRyo) (X/Twitter)
• {surreal} 0.0.1: Create Datasets with Hidden Images in Residual Plots
• Gender and sexuality in Australian surveys and census
• Please Version Data
• Entire issue available at rweekly.org/2024-W38

Supplement Resources

• Surfing the WSL Wave - Coder Radio episode 587 https://www.jupiterbroadcasting.com/show/coder-radio/587/
• Brian (bhh32) on Nostr
• surreal https://r-pkg.thecoatlessprofessor.com/surreal/
• Residual Plots and Data Sets (archived version) https://web.archive.org/web/20210927100125/https://www4.stat.ncsu.edu/~stefanski/NSFSupported/HiddenImages/statresplots.html
• Labels for Technical Writing Projects https://ropensci.org/blog/2024/09/12/labels-writing-projects/
• Express to Impress: Leveraging IBCS Standards for Powerful Data Presentations https://medium.com/number-around-us/express-to-impress-leveraging-ibcs-standards-for-powerful-data-presentations-3c3a269f0ec0

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Moonlight Vibin' - Mega Man X5 - DCT - https://ocremix.org/remix/OCR02053
• You Are Not Confined - Final Fantasy IX - Sonicade - https://ocremix.org/remix/OCR01064

How being fair to your research has a new and important meaning than what you may expect, the power you can unlock with custom roxygen tags, and a collection of tips you can apply today for your next visualization.


Episode Links

• This week's curator: Batool Almarzouq - @batool664 (X/Twitter)
• Making your blog FAIR
• Create and use a custom roxygen2 tag
• Five ways to improve your chart axes
• Entire issue available at rweekly.org/2024-W37

Supplement Resources

• httr2: Perform HTTP requests and process the response https://httr2.r-lib.org/
• Athanasia's GitHub Actions workflow files https://github.com/drmowinckels/drmowinckels.github.io/tree/main/.github/workflows
• maestro: Orchestration of data pipelines https://whipson.github.io/maestro/

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Crysis Crystal - Mega Man 9: Black in Blue - k-wix - https://backinblue.ocremix.org/index.php
• Of Whips and Strings - Vampire Variations: A Musical Tribute to Castlevania - Super Guitar Bros. - https://ocremix.org/remix/OCR02480 

A peek behind the curtain of how R handles that batch of code you send to the console, an adventure in automating the translation of Quarto documents to multiple languages, and there's no time like the present to give your code a little linting love.
Episode Links

• This week's curator: Sam Parmar - @[email protected] (Mastodon) & @parmsam_ (X/Twitter)
• Long input lines
• Translating Quarto (and other markdown files) into Any Language
• Get your codebase lint-free forever with lintr
• Entire issue available at rweekly.org/2024-W36

Supplement Resources

• News from R Submissions Working Group – Pilot 3 Successfully Reviewed by FDA
• Mastodon Accounts Posting About #RStats

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Torvus Clockwork - Metroid Prime 2: Echoes - DarkeSword - https://ocremix.org/remix/OCR01507
• Sleep, My Sephy (Judgement Day) - Final Fantasy VII: Voices of the Lifestream - Pot Hocket - https://ff7.ocremix.org/

A few tools you can use to find those elusive bottlenecks in Shiny app performance, adding a dash of interactivity to a reactable table, and save yourself many hours of manual effort with Quarto parameterized reporting.
Episode Links

• This week's curator: Colin Fay - @[email protected] [@ColinFay]](https://twitter.com/ColinFay) (X/Twitter)
• Unveiling Bottlenecks (Part 2): A Deep Dive into Profiling Tools\
• Creating interactive tables with reactable
• Automating Quarto reports with parameters
• Entire issue available at rweekly.org/2024-W35

Supplement Resources

• {golem} 0.5.0 is now available
• Shiny Developer Series Episode 12: Reactlog with Barrett Schlerke https://shinydevseries.com/interview/ep012/ 
• The Coding Cats shop https://www.etsy.com/shop/thecodingcats/
• A visual journey through world exhibitions https://georgios.quarto.pub/a-visual-journey-through-world-exhibitions/
• Six ways to find better content on Mastodon https://www.infoworld.com/article/2338712/6-ways-to-find-better-content-on-mastodon.html

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Tails and the Music Maker - Picolescence - zircon - https://ocremix.org/remix/OCR02176
• The Amazon Session - Ducktales - Gux - https://ocremix.org/remix/OCR00402

Eric flies solo for this episode with a recap of his positconf 2024 adventures! Also how not to panic when you see a merge conflict in Git, the genesis of the new R ARUG community in India, and a great primer on creating your own Quarto templates.
Episode Links

• This week's curator: Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
• Please let me merge before I start crying and other things I've said at the Git terminal
• A New R Community in Ahmedabad, India, focused on Clinical Research and Pharmaceutical Industries
• Designing and deploying internal Quarto templates
• Entire issue available at rweekly.org/2024-W34

Supplement Resources

• Shiny-based clinical submissions using WebAssembly https://rpodcast.github.io/shiny-webr-posit2024/#/section
• Introducing saperlipopette, a package to practice Git! https://masalmon.eu/2024/01/18/saperlipopette-package-practice-git/
• NORC crime tracker Shiny app https://livecrimetracker.norc.org/#home

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• You Are Not Confined - Final Fantasy IX - Sonicade - https://ocremix.org/remix/OCR01064
• Seven Pipes to Heaven - Super Mario Land - Nostalvania - https://ocremix.org/remix/OCR03256

A realistic take on converting the NY Forest Carbon Assessment modeling pipeline to the tidymodels suite, and a review of R package development workflows in the Positron IDE.


Episode Links

• This week's curator: Jon Calder - @[email protected] (Mastodon) & @jonmcalder (X/Twitter)
• Converting New York’s Forest Carbon Assessment to Tidymodels
• R package development in Positron
• Entire issue available at rweekly.org/2024-W32

Supplement Resources

• Tidy Modeling with R e-book: https://www.tmwr.org
• maestro: Orchestration of data pipelines https://whipson.github.io/maestro/
• Pharma RUG: The Rise of R in China’s Pharmaceutical Industry https://www.r-consortium.org/blog/2024/08/01/pharma-rug-the-rise-of-r-in-chinas-pharmaceutical-industry 
• R/Pharma APAC track call for talks: https://rinpharma.com/post/2024-07-17-apac-track/

Supporting the show

• Use the contact page at https://serve.podhome.fm/custompage/r-weekly-highlights/contact to send us your feedback
• R-Weekly Highlights on the Podcastindex.org - You can send a boost into the show directly in the Podcast Index. First, top-up with Alby, and then head over to the R-Weekly Highlights podcast entry on the index.
• A new way to think about value: https://value4value.info 
• Get in touch with us on social media
  • Eric Nantz: @[email protected] (Mastodon) and @theRcast (X/Twitter)
  • Mike Thomas: @mike[email protected] (Mastodon) and @mikeketchbrook (X/Twitter) 

Music credits powered by OCRemix

• Person, Place, or Groove? - Pictionary - The Orichalcon - http://ocremix.org/remix/OCR01548