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Lukas Forer

@lukfor.bsky.social
1.7K followers 330 following 69 posts

Assistant Professor of Genome Informatics. MedUni Innsbruck. Cloud Computing, Machine Learning, AI, Genotype Imputation. Open Source and Open Science. Co-Creator of Michigan Imputation Server and www.askimed.com. Creator of www.nf-test.com.

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Lukas Forer @lukfor.bsky.social · 19/04/2026
Childhood trauma unlocked!
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Retro Game Cartridges @retro-cartridges.bsky.social · 31/01/2026
Do you remember this Prince of Persia version? 🎮 Prince of Persia 🕹 NES (PAL) 📅 1992 💡 A simplified but very playable console adaptation 👑 Prince of Persia cartridges every Saturday #PoPSaturday
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Lukas Forer @lukfor.bsky.social · 25/01/2026
Over the years, my Game Boy cartridge collection quietly grew to around 100 pieces. Last week, I decided to turn it into a small nostalgia project. One cartridge per day.
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Lukas Forer @lukfor.bsky.social · 25/10/2025
After a long journey, our nf-test paper is officially out! 🚀 doi.org/10.1093/giga...
doi.org
Improving the Reliability, Quality and Maintainability of Bioinformatics Pipelines with nf-test
Abstract. The workflow management system Nextflow, together with the nf-core community, has established an essential ecosystem in bioinformatics. However,
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Cameron Patrick @cameronpat.bsky.social · 04/10/2025
This is how I integrate Quarto and Zotero with minimal suffering (long rambling post, scroll down to the section on bibliography or search for Zotero): cameronpatrick.com/post/2023/07...
cameronpatrick.com
Cameron Patrick - Some Quarto PDF formatting tips, with particular reference to thesis writing
I’ve just spent most of a day faffing around trying to get Quarto to produce a nice PDF file that I like the look of and which meets my university’s formatting requirements for a PhD thesis. Maybe my ...
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Robert Petit @rpetit3.bsky.social · 26/08/2025
Another Bactopia update! I think the plugin is completed now! I've also started the transition from pytest to nf-test (from @lukfor.bsky.social and @sebschoenherr.bsky.social). So far nf-test has been great to work with! Haha probably should have made the transition a long time ago!
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Johannes Kager @johk.bsky.social · 27/07/2025
Here you go! #ciddle #südtirol jrkager.github.io
jrkager.github.io
Südtirol-Raten
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Cristian Pattaro @cpattaro.bsky.social · 13/06/2025
As a post-GWAS analysis, ever thought about automatic haplotype testing @ each locus + test vs any number of traits? 👏 Amazing @dariushghasemi.bsky.social just released #Haplomics, a #Snakemake pipeline walking u all the way down to summary stats+clustering www.medrxiv.org/content/10.1... #statgen
medrxiv.org
Haplomics: A Snakemake pipeline for haplotype-based association analysis in multi-omics studies
Summary Genome-wide association studies (GWAS) generated thousands of loci associated with complex traits and diseases. However, to characterize of the pleiotropic, molecular and population genetic bo...
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Lukas Forer @lukfor.bsky.social · 17/04/2025
Really cool that the latest VSCode extension for Nextflow shows nf-test test coverage! 🚀
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Humangenom Austria @humangenomaustria.bsky.social · 13/03/2025
𝐇𝐮𝐦𝐚𝐧𝐠𝐞𝐧𝐨𝐦 𝐀𝐮𝐬𝐭𝐫𝐢𝐚 ist jetzt auf Bluesky! Das österreichische Humangenomprojekt ist eine Initiative für 𝐝𝐢𝐞 𝐈𝐧𝐭𝐞𝐠𝐫𝐚𝐭𝐢𝐨𝐧 𝐠𝐞𝐧𝐞𝐭𝐢𝐬𝐜𝐡𝐞𝐫 𝐮𝐧𝐝 𝐠𝐞𝐧𝐨𝐦𝐢𝐬𝐜𝐡𝐞𝐫 𝐃𝐚𝐭𝐞𝐧 𝐢𝐧 𝐌𝐞𝐝𝐢𝐳𝐢𝐧 𝐮𝐧𝐝 𝐖𝐢𝐬𝐬𝐞𝐧𝐬𝐜𝐡𝐚𝐟𝐭 in ganz Österreich. Infos ➡️ www.humangenom.at #Genetik #Genetics #Health #Genomics #GenomeOfEurope
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Azin Kheirkhah @azinkh.bsky.social · 06/03/2025
What a fantastic talk given by Prof. Michael Moor. Thanks to the Faculty of AI and Scientific Computing in Medicine for organizing such an important event. @i-med.ac.at @sebschoenherr.bsky.social @lukfor.bsky.social #MedSky
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Johannes Klingebiel @klingebeil.bsky.social · 23/02/2025
“Infinite code = infinite maintenance” leaddev.com/software-qua...
leaddev.com
How AI generated code compounds technical debt
GitClear’s latest report exposes rising code duplication and declining quality as AI coding tools gain in popularity.
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Azin Kheirkhah @azinkh.bsky.social · 18/02/2025
🎙️ #Atherotalk Episode 7 is live, don’t miss it! I had the chance to interview my mentor, Prof. Kronenberg. @i-med.ac.at @aspcardio.bsky.social @katioorni.bsky.social #MedSky #CardioSky #Lpa #FH #Podcast 🎧Spotify: open.spotify.com/episode/26Me...
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Lukas Forer @lukfor.bsky.social · 15/02/2025
Just found my first real game on some old floppy discs from around 1999: a Mastermind clone written in QBasic. I remember being super happy and proud because it was the first project I actually finished instead of stopping halfway to start another idea. 👨🏻‍💻
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Gregor Sturm @grst.bsky.social · 05/02/2025
I'd like to share DSO, a command line helper to build reproducible data science projects with ease. It is an opinionated way to organize data science projects, built around data version control (DVC). github.com/Boehringer-I...
github.com
GitHub - Boehringer-Ingelheim/dso: Data Science Operations (dso) command line tool
Data Science Operations (dso) command line tool. Contribute to Boehringer-Ingelheim/dso development by creating an account on GitHub.
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Lukas Forer @lukfor.bsky.social · 01/02/2025
We had an amazing time at the 2-day Hackathon at @i-med.ac.at ! Can't wait for the next one! 🚀
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Silvia Di Maio @silvidm.bsky.social · 29/01/2025
Our Nextflow in Genomics workshop kicks off tomorrow! Excited to dive into imputation with @sebschoenherr.bsky.social and @lukfor.bsky.social #nf-genomics #freeimputation
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Lukas Forer @lukfor.bsky.social · 29/01/2025
Looking forward to great discussions, learning, and sharing insights. Busy but productive days ahead!
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Lukas Forer @lukfor.bsky.social · 22/01/2025
I learned the hard way today: SimpleDateFormat in Java is NOT thread-safe! #java
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Phil Ewels @ewels.bsky.social · 22/01/2025
Yes, but can it run Doom? `nextflow run doom` ✅ @nextflow.io (by @jordeu.bsky.social 🌟) github.com/nextflow-io/...
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Lukas Forer @lukfor.bsky.social · 20/01/2025
Für die #Geoguessr Spieler unter uns: eine Map mit ca. 9.900 locations aus #Südtirol. Viel Spaß! 📍 www.geoguessr.com/maps/678e0b0...
geoguessr.com
GeoGuessr - Südtirol
Explore this map by lukfor on GeoGuessr
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Lukas Forer @lukfor.bsky.social · 16/01/2025
Looking forward to spending two days working on the imputation server with fantastic people! Thanks to @seqera.io, @ewels.bsky.social and @chrishakk.bsky.social for sending us stickers 🙏
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Seth Stadick @ducktapeprogrammer.bsky.social · 10/01/2025
For anyone who hasn’t already read the article, this is a pretty great video from Prime on it. curiouscoding.nl/posts/static...
curiouscoding.nl
Static search trees: 40x faster than binary search
Table of Contents 1 Introduction 1.1 Problem statement 1.2 Motivation 1.3 Recommended reading 1.4 Binary search and Eytzinger layout 1.5 Hugepages 1.6 A note on benchmarking 1.7 Cache lines 1.8 S-tree...
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Lukas Forer @lukfor.bsky.social · 10/01/2025
👏
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Lukas Forer @lukfor.bsky.social · 30/12/2024
2024 is ending soon and it has been an exciting year for nf-test 🎉 A lot of new features and the amazing @nextflow.io community made nf-test even better 🚀 Thank you! 🙏 💡 What was your favorite nf-test update this year? #Nextflow #Bioinformatics #recap Here's a quick look back at 2024 🧵👇
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Lukas Forer @lukfor.bsky.social · 22/12/2024
Super cool! MultiQC now supports Haplocheck! 🚀 @sebschoenherr.bsky.social @whansi.bsky.social
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Lukas Forer @lukfor.bsky.social · 19/12/2024
💻🧬
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Azin Kheirkhah @azinkh.bsky.social · 13/12/2024
If you're looking to connect with other researchers and physicians in the cardiovascular field, join this Starter Pack. #CardioSky #MedSky #GeneSky #ImmunoSky go.bsky.app/VEqq8ML
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Lukas Forer @lukfor.bsky.social · 05/12/2024
Don't forget to open the door number 5 of the Nextflow Advent Calendar! 😍
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Florian Wünnemann @flowuenne.bsky.social · 03/12/2024
Christmas time is upon us 🎄🎅! What better way to count down the days till Christmas eve than with an Advent calender? I am one day late, but here is little Nextflow advent calender I made for everyone. Check back every day at midnight EST to open a new door: flowuenne.github.io/nextflow_adv...
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Lukas Forer @lukfor.bsky.social · 02/12/2024
"Nextflow and nf-test encourage developers to use proper testing practices which are fundamental skills any developer needs." 👏 🚀
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Lukas Forer @lukfor.bsky.social · 01/12/2024
I'm a huge fan of the Eisvogel template for Pandoc! I've just updated my quarto-eisvogel extension to Eisvogel 2.5.0 and it works now with @quarto.org 1.6 🎉 Install lukfor/quarto-eisvogel, set the format to eisvogel-pdf and enjoy beautiful PDFs! 🙌 #rstats #quarto 👉 github.com/lukfor/quarto-eisvogel
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Lukas Forer @lukfor.bsky.social · 01/12/2024
I'm a huge fan of the Eisvogel template for Pandoc! I've just updated my quarto-eisvogel extension to Eisvogel 2.5.0 and it works now with @quarto.org 1.6 🎉 Install lukfor/quarto-eisvogel, set the format to eisvogel-pdf and enjoy beautiful PDFs! 🙌 #rstats #quarto 👉 github.com/lukfor/quarto-eisvogel
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Hadley Wickham @hadley.nz · 26/11/2024
I had zero luck with grants. People really didn’t get why what I did was important and never figured out how to explain it to them.
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Nextflow @nextflow.io · 28/11/2024
🎙️Check out the latest podcast where @ewels.bsky.social discusses highlights from the @nextflow.io Summit with the team at @seqera.io! 👉 Listen now: hubs.la/Q02ZN8l20
hubs.la
Nextflow Summit Barcelona 2024 Highlights | The Nextflow Podcast by Seqera
Seqera | The Home for Open Science | From the creators of Nextflow, Wave, and MultiQC
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Cristian Pattaro @cpattaro.bsky.social · 26/11/2024
📢We have a new Post-doc position in #bioinformatics & #biostats • Link: eurac.onboard.org/jobs/RGbRKOG2 • Deadline: 15.12.2024 The fellow will work on bioinformatic methods for cancer & other complex traits. Looking for experts on RNA-seq, ChIP-seq, ATAC-seq and WES analyses
eurac.onboard.org
Post-doc position in bioinformatics and biostatistics
Eurac Research · Bozen/Bolzano
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Sebastian Schönherr @sebschoenherr.bsky.social · 25/11/2024
🌍 The imputation servers running on our software stack: 🛰️ Our Main Instance: imputationserver.sph.umich.edu 🛰️ TOPMed: imputation.biodatacatalyst.nhlbi.nih.gov 🛰️ MUC: imputationserver.helmholtz-munich.de 💡 Are there other imputation servers flying around?
imputationserver.sph.umich.edu
Michigan Imputation Server 2
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Evan Peck @peck.phd · 20/11/2024
Trying something new: A 🧵 on a topic I find many students struggle with: "why do their 📊 look more professional than my 📊?" It's *lots* of tiny decisions that aren't the defaults in many libraries, so let's break down 1 simple graph by @jburnmurdoch.bsky.social 🔗 www.ft.com/content/73a1...
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Lukas Forer @lukfor.bsky.social · 20/11/2024
I just updated the starter pack and added the bridge account @uniinnsbruck.social.uibk.ac.at.ap.brid.gy
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Lukas Forer @lukfor.bsky.social · 20/11/2024
Nextflow is the leading workflow system in life sciences, but transforming pipelines into secure web services remains complex. Our latest preprint introduces a framework that simplifies this process to improve accessibility and collaboration. www.biorxiv.org/content/10.1... Here's how it works: 🧵👇
biorxiv.org
Cloudgene 3: Transforming Nextflow Pipelines into Powerful Web Services
Nextflow has emerged as a flexible and scalable workflow system for building computational pipelines in life sciences. Simultaneously, Software-as-a-Service platforms enable researchers to concentrate...
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Lukas Forer @lukfor.bsky.social · 20/11/2024
A great starter pack for the mtDNA community!
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Lukas Forer @lukfor.bsky.social · 18/11/2024
Totally agree!
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Lukas Forer @lukfor.bsky.social · 18/11/2024
Fantastic work highlighting the critical role of proper development practices in Bioinformatics! 🎉 Also, a big thanks for featuring nf-test in the testing section. 👉 ferenckata.github.io/ImprovingSof... And here the preprint of nf-test: www.biorxiv.org/content/10.1...
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Lukas Forer @lukfor.bsky.social · 18/11/2024
I created also a list that lets you pin it to your home screen without needing to follow each account individually. bsky.app/profile/lukf...
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Lukas Forer @lukfor.bsky.social · 18/11/2024
I just created a starter pack to collect accounts related to science in Innsbruck 🏔️ Feel free to contact me if I should put someone on the list go.bsky.app/PTnZKvx cc: @sigridneuhauser.bsky.social @francescafinotello.bsky.social
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Seth Abramson @sethabramson.bsky.social · 17/11/2024
I learned some stuff about Bluesky I did not know by reading this. Maybe worth passing it on to others so we can all start getting the full benefit of the 🦋.
theverge.com
Here’s some cool stuff you can do with Bluesky
It’s not just an Alf pics repository.
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Lukas Forer @lukfor.bsky.social · 18/11/2024
🖼️
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Lukas Forer @lukfor.bsky.social · 17/11/2024
wow! nf-test has hit 100,000 downloads! 🎉🚀 A huge thank you to the @nextflow.io and @nf-co.re community! 🌟🙏
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zack chiang @zchiang.bsky.social · 14/11/2024
who knew it would be easier to get everyone to switch social media platforms than getting them to use hg38
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