Join me today at the @nf-co.re help desk to discuss your questions about @nextflow.io and nf-core at 2pm Eastern Time! 🍏💻🧬!

nf-core@nf-co.re · 10mo ago

🧑🏾‍💻 Need help with #nfcore #nextflow ( #bioinformatics ) pipelines, running or developing? 📅 We host regular helpdesks for different TZs - 🌎 Americas: Tues. @ 14:00 ET (Today) - 🌍 Eur/M.E./Afr: Thurs. @ 10:00-11:00 CEST - 🌏 Asia-Pacific: Weds. @ 15:00 NZDT Join the nf-core slack for more details!

Join us for two days of fun in Barcelona, hacking away at nf-core projects!

Seqera@seqera.io · 11mo ago

Spaces are filling up for the @nf-co.re Hackathon in Barcelona on Oct 28-29! 👩‍💻 🔗 Register now: hubs.la/Q03K3MmF0

Check out the blog post by Nextflow Ambassador Zohaib Anwar on VIRUS-MVP: a flexible and scalable workflow for genomic surveillance of priority viruses including SARS-CoV-2, Mpox, RSV, and influenza! 🦠 👉 Read now: hubs.la/Q03lM5KG0 #NextflowAmbassador @nf-co.re

VIRUS-MVP: A scalable and flexible pathogen surveillance workflow powered by Nextflow and nf-core | Seqera

VIRUS-MVP leverages Nextflow and nf-core to provide a modular, automated, and scalable framework for genomic surveillance of priority viruses. Designed initially for SARS-CoV-2, the workflow was later...

hubs.la

Check out this fantastic work on neighbourhood preference in spatial omics data from the Schapiro lab 🚀! Congratulations @chiaraschiller.bsky.social and team on a wonderful project! 👏🤩

Chiara Schiller@chiaraschiller.bsky.social · last yr.

1/ Ever wondered how to best quantify cell-cell neighbor preferences in tissues? We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨ Read more: doi.org/10.1101/2025...

You should definitely check out this amazing Nextflow podcast episode with my friend and collaborator @kbestak.bsky.social discussing microscopy and spatial omics workflows in nf-core and Nextflow! 🤩🔬🧪

Nextflow@nextflow.io · last yr.

🎉Episode 50 of the @nextflow.io Podcast is here! Host @ewels.bsky.social sits down with @kbestak.bsky.social, a PhD student and active contributor to the @nf-co.re community, working at the cutting edge of #SpatialOmics and #microscopy. 🎧Catch it here: hubs.la/Q03fVPNx0

My latest #Nextflow pipeline has just been published in JOSS 🎉

Journal of Open Source Software@joss-openjournals.bsky.social · last yr.

Just published in JOSS: 'AliNe: A Flexible and Efficient Nextflow Pipeline for Read Alignment' https://doi.org/10.21105/joss.07545

Running Nextflow pipelines on AWS ☁️? Check out the blogpost I wrote about using resource Labels with Nextflow and Seqera to get detailed pipeline run costs 💵.

Seqera@seqera.io · last yr.

Cost reporting of computational projects and workflows is critical for understanding and optimizing cloud spending 💡Our latest blog explores how resource labels can be used to tag AWS infrastructure resources for detailed cost reporting across your workflows and teams in Seqera hubs.la/Q03bghM70

If you want to start learning #Nextflow or brush up on your basics of #Nextflow, now is the perfect time 🕑! New training materials and support from ambassadors and experienced community members during training week help guide you through it, at your own pace! community.seqera.io/t/nextflow-t...

Nextflow@nextflow.io · last yr.

The #Nextflow #Training week has begun! 🎉 New to Nextflow or need a guided intro? Watch the brand new on-demand walkthrough videos for the "Hello Nextflow" course, and learn at your own pace! hubs.la/Q03b2-Rk0

Come and talk about your amazing projects at the #Nextflow summit in Boston 🎤! I am very sad to miss this summit this year, but it will be a fantastic event, so make sure you to submit your abstract before the deadline 🤩!

Nextflow@nextflow.io · last yr.

📢 Reminder! The call for speakers at #NextflowSummit in Boston closes on Friday, Mar 14 Have groundbreaking research, novel workflows, or real-world success stories to share? This is your chance to take the stage! ⏳Submit your abstract now: hubs.la/Q039nrrG0

Great opportunity to get together with your colleagues and friends and watch the training videos to learn Nextflow together 👥. 💬 Discussing things not clear to you and sending questions to the community forum are all great ways to accelerate your learning experience and increase the fun 🚀 🤩!

Nextflow@nextflow.io · last yr.

🚀 Introducing #Nextflow Training Week! A free, self-paced online training designed to help beginners get started with Nextflow. 📅 March 10-14, 2025 🎥 On-demand videos and real-time support 💬 Ask questions in our community forum Learn more and join us: hubs.la/Q038kTQm0

Interesting to see doom and gloom as separate ends of a governance axis!

Sebastian S. Cocioba@atinygreencell.bsky.social · last yr.

On the axis of doom and gloom

New blog post: Exploring the bioRxiv API with R, httr2, rvest, tidytext, and Datawrapper doi.org/10.59350/wzt... #Rstats

Introducing @gestaltsp.bsky.social We’re growing with already >1000 members. Come be part of spatial omics revolution!!! @ioavlachos.bsky.social @lgmartelotto.bsky.social @naturegenet.bsky.social rdcu.be/d8qHT #spatial #omics #technology #computation #tissue #singlecell

Introducing the Global Alliance for Spatial Technologies (GESTALT)

Nature Genetics - This Comment outlines the creation of the Global Alliance for Spatial Technologies (GESTALT), a collaborative initiative aimed at fostering the growth and standardization of...

rdcu.be

Don't miss this chance to listen to my amazing colleagues Esha and Rob talk about how you can utilize Seqera Platform to help streamline your scientific data analysis! 🤩

Seqera@seqera.io · 2y ago

📢 Last chance to register for our webinar happening tomorrow! Join us to discover how Seqera is streamlining the entire data lifecycle, from pipeline runs through to downstream analysis and scientific insights. Register now: hubs.la/Q034273k0

📣 We are hiring! Join Yoshiji Lab at McGill University Dept of Human Genetics in Montreal, Canada! yoshiji-lab.org/joinus ✅Fully Funded Positions • 2 MSc Students • 1 PhD Student • 1 Postdoc ✅Goal: Using human genetics and multi-omics for drug target discovery and precision medicine

Satoshi Yoshiji, MD, PhD@satoshiyoshiji.bsky.social · 2y ago

📣Excited to share our paper in Nature Genetics! rdcu.be/d7mo0 Do plasma proteins mediate obesity’s effect on CAD risk? →Using two-step proteome-wide MR, domain-aware MR, epigenomics & scRNA-seq, we prioritized endotrophin, cleaved from COL6A3, as a mediator & potential therapeutic target. A 🧵↓

You can now use Seqera AI with MultiQC! 🤖 Get insights from your reports and chat about potential QC issues with Seqera AI, directly from inside your MultiQC reports! Fantastic new update by everyone involved at @seqera.io !

Seqera@seqera.io · 2y ago

The gold standard in #bioinformatics reporting just got even better! #AI Summaries are now available in @multiqc.info🎉 Find out more: hubs.la/Q033Kjp30

Protein backbone diffusion models consistently undersample catalytically important motifs, and oversample idealized helices, raising questions about the appropriateness of these methods in designing starting points for enzyme design & evolution. From www.biorxiv.org/content/10.1...

Are you looking for job opportunities where your #Nextflow skills are valued? Check the list we've compiled below. #Jobs #Opportunities

Extra! Extra! If you're into cardiovascular development and regeneration, and you want to hobnob with all them awesome scientists, then follow @weinsteinconf.bsky.social and submit an abstract for the 2025 Weinstein Conference in Milwaukee!! #favorite #conference #ever

a close up of a chocolate chip cookie on a white surface

ALT: a close up of a chocolate chip cookie on a white surface

media.tenor.com

Weinstein Conference@weinsteinconf.bsky.social · 2y ago

Calling all cardiovascular scientists.... @WeinsteinConf is in Milwaukee May 14-16! Abstract submission now open. Registration portal is imminent! childrenswi.org/weinstein Are you a trainee and want to be considered for a platform talk - abstract due Feb 21!

Interesting concept. jetty::run() executes R code in a Docker container and passes the results back into the local environment https://cran.r-project.org/web/packages/jetty/index.html (source: https://github.com/dmolitor/jetty)

jetty: Execute R in a 'Docker' Context

The goal of 'jetty' is to execute R functions and code snippets in an isolated R subprocess within a 'Docker' container and return the evaluated results to the local R session. 'jetty' can install…

cran.r-project.org

I am organizing a local site in Montreal for this @nf-co.re hackathon 🇨🇦. Anyone in the area who is interested to help organize or join this hackathon and a potential #Nextflow training before, please DM me 😊!

nf-core@nf-co.re · 2y ago

Our next hackathon is rapidly approaching! 🚀 - March 24-26, 2025 - Online / local distributed sites For the distributed sites, WE NEED YOU! 🎯 If you're able to book a meeting room and host a local site, fill in the local site registration form: nf-co.re/events/2025/...

Do you want some AI guided help to write #Nextflow pipelines or convert your old legacy pipelines to #Nextflow? Go to seqera.io and try out Seqera AI now 🤩!

Seqera@seqera.io · 2y ago

Write once, run anywhere: By wrapping your scripts to @nextflow.io, you can fully describe a computational pipeline with all of its dependencies and run it anywhere! 🧵

Nextflow4MS-DIAL: A Reproducible Nextflow-Based Workflow for Liquid Chromatography–Mass Spectrometry Metabolomics Data Processing #JASMS pubs.acs.org/doi/10.1021/...

Nextflow4MS-DIAL: A Reproducible Nextflow-Based Workflow for Liquid Chromatography–Mass Spectrometry Metabolomics Data Processing

Reproducibility in untargeted metabolomics data processing remains a significant challenge due to software limitations and the complex series of steps required. To address these issues, we developed N...

pubs.acs.org

For anyone that loves poker and card games, Balatro is such a great game! Just started playing it again on my tablet via Apple Arcade and having a blast 🎮🃏! apps.apple.com/ca/app/balat...

‎Balatro+

‎Welcome to the official Balatro+ game! Hypnotic and endlessly satisfying, Balatro is a magical mix of card games like Solitaire and Poker, that lets you twist the rules in ways never seen before! Yo...

apps.apple.com

Now that advent time and Christmas is over, I wanted to share the hidden easter eggs 🥚 in my #Nextflow advent calendar, for everyone that missed them. Head to flowuenne.github.io/nextflow_adv... to discover them yourself or find all cheat codes in this 🧵...

Today is the last day of my #Nextflow advent calender. It was fun doing this during December and I hope people discovered things they didn't know yet about the NF ecosystem ☺️! flowuenne.github.io/nextflow_adv... Merry Christmas and a Happy New Year to everyone 🎄❄️☃️🎁🎆

I hope we get many people together across Quebec (Canada) for a local site for this hackathon. If you are interested to join our local site in person, please contact me so we can plan ahead ☺️! Excited to hack some Nextflow with many of you 👍💻

nf-core@nf-co.re · 2y ago

Our next hackathon is rapidly approaching! 🚀 - March 24-26, 2025 - Online / local distributed sites For the distributed sites, WE NEED YOU! 🎯 If you're able to book a meeting room and host a local site, fill in the local site registration form: nf-co.re/events/2025/...

An opportunity to work at an amazing place with amazing people! 🦠 “GeneLab is seeking a #Bioinformatics #ProgramDeveloper to drive research with #omics data from space biology experiments. Develop workflows and analyze data critical to human space exploration. 🔗 Apply now: tinyurl.com/8psb8uwn “

Are you looking for job opportunities where your Nextflow skills are valued? Check the list we've compiled below. #Jobs #Opportunities