There is a subtle difference in transforming a vector into a file using writeLines() or write.table(col_names = F, row.names=F): the latter allows quotes in the output. It makes a lot of difference for file paths, for example. #rstats

R/Medicine conf is so good. I'm not in medicine, and it doesn't matter. It's always great!! #rstats

OMG the proportion this post took. This is NOT a hateful post for tidyverse. I love tidyverse! It is only a person pov while doing more stuff with python pandas*. As @nrennie.bsky.social pointed out, polars is more similar to the tidyverse.

It is much easier to understand python code for data science if you know a bit of base R than if you only know tidyverse. #rstats #python

English version now available luisdva.github.io/rstats/RRstu...

Using quarto with python is a whole new experience. It is *not* a simple switch of languages (if you're an R user like me).

We also have a separate programme for the Global South. If your idea is selected, we will bring the event to your region. #BiologistsWorkshops Details: www.biologists.com/workshops/pr...

Wow. ✨

Is there any buzzfeed-like quiz out there yet to figure out which AI model is the best for you? It would be fun.

{ellmer} 10/10 in stability to extract structured from unstructured data using #gemini API. I used type_object() to set the desired output, and json to set the input. I'm still experimenting with LLM API calls, but so far it was much better error-wise than a python script with schemas. #rstats

Guys, you need to come up with a better strategy of getting rid of robots. I lose half of my day recognizing buses, bikes and stairs.

Creating a package to organize my work, instead of just reloading functions from scripts, was the best thing I did so far this year. #rstats

2 weeks left to take the stage at posit::conf(2026)! 🎤 Share your work on R, Python, open-source, or any topic the community would love. Can't make it to Houston? Apply for our virtual track! It’s a great way to reach the global community. Apply here: posit.co/blog/posit-c... #positconf2026 #rstats

The Shingles vaccine and reduction of dementia: a new natural experiment from Canada replicated 3 others and adds to this week's link to slowing of biological aging. erictopol.substack.com/p/spotlight-...

If you'd like your files to be ordered by "last modified" in the explorer, you can append the following config to your settings.json: { "explorer.sortOrder": "modified" } Works both in #positron and in #vscode.

If you are using independent training and testing sets which need PCA calculation in genomics, be sure to do it using projection and to the same panel, alongside the same parameters (maf, ld and missingness). Otherwise, you are comparing bananas to apples. #genomics #bioinformatics

Speak at posit::conf(2026) and share your R & Python stories! Accepted speakers get: ✨ Travel & lodging help ✨ Free conference pass ✨ Professional coaching Apply by Feb 6 to join us Sept 14-16 in Houston, TX! Submit here: pos.it/conf-talk-2026 #positconf2026 #rstats #pydata

3 things I learned from @stephenturner.us workshop on #R pkg development in #Positron - there is a light bulb icon that creates a roxygen template for an R file - available::available("pkgname") checks if the name you want has already been used - {pkgndep} evaluates heaviness of pkg dependencies

I use a gist everytime I need to run a few basic #bioinformatics explorations in a new instance, and thought I could share it here so someone could benefit from it too! I have forked it and adapted a bit to my needs. Here it goes: gist.github.com/flaviaerius/...

I won't miss this one!

poisonfrogs: Color Palettes Inspired by Neotropical Poison Frogs laurenoconnelllab.github.io/poisonfrogs/ #Rstats

Really nice work by @nbaya.bsky.social and co. showing that, as expected, individuals whose observed phenotype deviates from their genetically predicted trait are enriched for rare damaging variants in associated genes with said trait. Now to see if embryo selection companies pick up on this 😉

Crazy interesting biology! I wonder if there is any phenotypic evidence of this chimerism.

#RStats Friends, for those of you who need to work with #RStudio in Windows I've put a survival guide for you here. github.com/eriksquires/...

Turn YAML into R and R into YAML with the new {yaml12} #RStats 📦 posit-dev.github.io/r-yaml12/ind... By @t-kalinowski.bsky.social On the 📦 website: "YAML in 2 Minutes: A Gentle Introduction for R Users" posit-dev.github.io/r-yaml12/art...

polars-bio—fast, scalable and out-of-core operations on large genomic interval datasets academic.oup.com/bioinformati... 🧬🖥️🧪 github.com/biodatageeks...

Tech I'm thankful for blog.stephenturner.us/p/tech-im-th... #rstats 🧬🖥️🧪

Tip for formatting text on Google Docs by Gemini *without changing content*: If the text is in one language, use the prompt to format in another language. It worked perfectly for me! Before that, every time I asked it to "format without changing text" it failed. #gemini

My talk on #positconf2025 is available on Youtube! Check it out: youtu.be/phh8p2ImBMQ?...

🧬 PRSs in practice (3/5): Higher-risk results = behaviour change? A common concern is that higher-risk polygenic risk scores (PRSs) don’t motivate lifestyle behaviour change. My @nathumbehav.nature.com paper with @mikeinouye.bsky.social addresses this 👉 rdcu.be/eNeKN #Genomics #BehaviourChange

So interesting! Highest SNP heritabilities (which mean variation explained by genetics) after controlling for parent education and birthplace were around 10% for social sciences and journalism, for arts and humanities, and for natural sciences, mathematics and statistics.

About PRSs in the clinics: people do not understand risk in general, not only the risk related to PRS. The solution is educating health professionals to communicate PRS risk (and other risks) clearly.

4 word horror story for an R user: "has a Java dependency"

Probably late, but his week I finally understood the meaning of prompt engineering. I used a prompt, extracted results, measured them, then adjusted both the input and prompt for better results, measured them, adjusted inputs again, measured results, and finally applied to a new dataset.

Ever wondered why analyzing RNA-seq data feels like walking through a fog with 20,000 dimensions? Let’s talk about the curse of dimensionality in bioinformatics—and why it’s not just a math problem, it’s a biological one. 🧵

I just want to share that I had a blast at #positconf2025! Met so many wonderful people, and gave a talk for the first time. It was awesome!

I’m new to bluesky,so.. hi! I’m Beatriz / Bea, from Brasil, and currently I’am a post doc researcher. I started to learn how to program in R in 2018 to use it on my research, and have been programming since then. I have a blog where I post and share presentations etc beamilz.com #rstats 👋

I have just experienced the magic of rv in recovering my R packages after having to format my laptop. Completely recommend! github.com/A2-ai/rv #rstats

Every #Rstats user should read this post from @jennybryan.bsky.social‬. Especially beginner to intermediate-level ones. www.tidyverse.org/blog/2017/12...

My biggest, loudest job application advice: WHY do you want this job? This SPECIFIC job? What about it interests you? What do you think of it? What can you bring to it? I know this sounds obvious but a generic cover letter isn't doing you favours - really. *Show me you know the job!* 1/7

TIL you can set different values of alpha based on categories on #ggplot2. Set 'aes(alpha = categories_col)', and then use scale_alpha_manual() to set specific transparency proportions. I used a lower alpha in order to visualize the most important categories here. #rstats

1/ When should you use a package vs. solving from scratch in bioinformatics? I get asked this all the time. Here’s my approach: 👇

TIL the parameter .before in mutate() from {dplyr}. It adds the new column(s) created to the *beginning* of the dataframe, instead of to the end. Quite useful! Source: #RforDataScience (2e) (sometimes you should read stuff you think you already know) #rstats

“The idea that taking walks, reading things unrelated to your research, and hanging out with strangers in a campus pub should be considered part of the serious process of thinking, but might well meet with skepticism in practice.” www.pnas.org/doi/10.1073/...

Use "export" + the variable name and value when creating a chain of bash scripts, for it to be available in the called script too. For example: export LD_CORRELATION=0.2 bash run_ld_correlation_reference.sh bash run_ld_correlation_samples.sh #bioinformatics

I think prenatal genetic testing should become part of IVF. The cost of even a single embryo mix up is enormous. NIPT (for parental relatedness) is affordable and can be done early during pregnancy. Parents must have assurance about their child. thenightly.com.au/australia/mo...

Quick #bioinformatics tip: If you'll use plink files in your pipeline, whenever possible, transform your VCF into pgen or bgen ASAP! Plink files are much faster to work with.

I need to say that Lonely Planet is still better than chatGPT to find interesting attractions for a trip.

jq is so useful.

I have the impression, when reading papers from the 1990's and before, that concepts were explained more clearly than nowadays.