Ellis Franklin

🦠 🪴 🪰 Le laboratoire de Biométrie et Biologie Evolutive (LBBE) ouvre ses portes dans le cadre de la fête de la science !
📆 Samedi 11 octobre 11h-12h30 14h-17h
📍 Campus de la Doua - arrêt Tram T1 et T4 " La Doua-Gaston Berger"
L’affiche du programme est à retrouver ci-dessous !

I am almost finally (_final_v3.2_this_one_updated) done creating my first R package! It's a re-desing of a report known to all bioinformatician.. I got almost 1k likes on linkedin with this one, crazy.

repo: github.com/barreiro-r/f...

had i great (and long) time doing it.

🎉 My first paper is out in NAR Genomics and Bioinformatics!

We developped Cluefish - an open-source R workflow designed for untargeted biological interpretation of transcriptomic data series.

If you're interested, take a gander:

🔗 github.com/ellfran-7/cluefish
📄 doi.org/10.1093/nargab/lqaf103

GitHub - mcanouil/quarto-preview-colour: A Quarto extension to add preview colour as a coloured symbol next to colour code in HTML, PDF, Typst, Docx, Reveal.js, Beamer, and PowerPoint A Quarto extension to add preview colour as a coloured symbol next to colour code in HTML, PDF, Typst, Docx, Reveal.js, Beamer, and PowerPoint - mcanouil/quarto-preview-colour

🎨 NEW: Quarto Preview Colour Extension v1.0.0!

✨ Inline colour previews (code and/or text)
✨ Hex, RGB, HSL, and HWB support
✨ Click to copy colour codes (HTML)
✨ HTML, LaTeX, Typst, DOCX & PPTX support

github.com/mcanouil/qua...

#Quarto #QuartoPub

Myself presenting my work at the conference

A photo of the sunset falling behind a statue near Hofburg, in Vienna

Presented cluefish 🎣 at @setac.bsky.social Europe in Vienna! It's an open-source R workflow for untargeted, comprehensive interpretation of transcriptomic data series 🧬
Curious? Check out the Github repo (github.com/ellfran-7/cl...) and the preprint (www.biorxiv.org/content/10.1...).

the "i'm tired boss" meme (a person looking tired saying "i'm tired boss")

RStudio after I forgot to stop the background job on Friday and left it rendering my #quarto presentation all weekend

#rstats

I led my first ever workshop on Reproducible Research last week for members of my lab 🎉 It was such fun! It started with an open discussion, followed by a hands-on Quarto introduction. I even created a Quarto website for the occasion. Feel free to check it out! ellfran-7.github.io/repro-resear...

In case you ever wondered about the differences between magrittr pipe and base pipe 🤔

This table is taken from a great stackoverflow answer by @GeorgKindermann

stackoverflow.com/questions/67...

#rstats #dataviz #phd

I love it! It gives me many ideas...

📝 "Six not-so-basic base R functions"

👤 Isabella Velásquez (@ivelasq3.bsky.social)

📖 Master 7 powerful base R functions! Unlock amazing functionality without extra packages.

🔗 https://ivelasq.rbind.io/blog/not-so-basic-base-r-functions/

#rladies #rstats #reference

I was thinking of setting up a GitHub account (or repo) for our lab where members could share useful lab-specific functions and Quarto report templates. Is this something other labs do, especially those where bioinformatics or data science isn't the primary focus?

New website for #tidyplots use cases, complete with data and code 🤩

tidyplots.org/use-cases/

#rstats #dataviz #phd

PDF table made with LaTeX and tabularray with {tinytable}

R code for making the table

#rstats and #QuartoPub PSA: @vincentab.bsky.social's {tinytable} is the absolute best table making package out there for LaTeX output (it natively supports tabularray!), and it's phenomenal for HTML. It has fully replaced {gt} and {kableExtra} for me vincentarelbundock.github.io/tinytable/

Last month, I finally dove into building my Quarto website 🎉
It was easy peasy thanks to @cwick.co.nz, @emilhvitfeldt.bsky.social, and @minecr.bsky.social with their video series (quarto.org/docs/blog/po...)! I highly recommend it!
I can now share various bits and bobs 📚
#quarto #Rstats

Possibly useful little #Rstats trick:

edit(names(iris))

will create a popup with the R code for the character vector containing the column names of your data frame that you can copy and paste, e.g.

c("Sepal.Length", "Sepal.Width", "Petal.Length", "Petal.Width", "Species")

Quarto: Publishing to GitHub Pages – MCU In this guide, we’ll explore various methods to publish your Quarto projects to GitHub Pages. We’ll cover both manual and automated approaches to help you choose the best fit for your workflow.

Unlock the secrets to effortlessly publish your Quarto projects to GitHub Pages!
Dive into my guide and transform your documents, books, and websites into live masterpieces with ease. 🚀📚✨

mickael.canouil.fr/posts/2024-1...

#Quarto #GitHubPages #GitHub #automation #CICD

Just pushed a Christmas update to {ggblanket}. I decided to support colour blending. It uses {ggblend} under the hood (thanks @mjskay.com), which uses graphics features developed by Paul Murrell. Give {ggblanket} and {ggblend} a star, if you find them useful. Oh, and have a merry Christmas #rstats

User Cheng Xu writes "Little known fact: R actually stands for R u kidding me I literally just spent 5 hours cleaning up the data stop giving me this error code. #TheMoreYouKnow #gradchool #Rstats"

When using R, I either feel like a genius, or I feel as if I'm in imminent danger of having my degrees revoked. There is no in between.

Cooool thanks for the share!

There are sooo many, but `grepl()` for pattern matching has helped me a lot!!

Ey up! 👋 Just teleported myself here and plan to mainly use this platform for all things R, Quarto, and reproducible research. If you're into the same, feel free to follow! #R #quarto

Title slide: Will your code run again? Tips for making code reproducible in R

If you missed my talk but still want to learn how to make your R code more reproducible, my slides are here 🙂:

daxkellie.quarto.pub/will-your-co...

All the links to packages and resources I mentioned are there, so hopefully this can be a nice reference, too!

#ESAus2024 #rstats #quartopub 🧪🌏

Introducing Rlinguo, a native mobile app that runs R - Rtask The R task Force - R experts for all your needs

#RStats

I'm so, so thrilled to finally share the release of Rlinguo, a mobile app that runs R 📱

This is a fully, native mobile app that uses #webR in the backend to run R functions.

Available on the App Store (iPhone) & Play Store (Android)

rtask.thinkr.fr/introducing-...