Adam

⏰ Time's ticking! Our State of the Workflow Survey ends very soon. Share your insights now for a chance to win an Apple MacBook Air M2 or cool @nextflowio swag. Don't miss out! 🎁✨ seqera.typeform.com/nextflow-2024?…

🇬🇧 Seqera Sessions update: Morning @nextflowio training is fully booked 🚫 but we still have a few complimentary tickets for the PM session! Connect with industry peers and explore open-source data pipeline software's role in scientific innovation💡Join: seqera.io/seqera-session…

💚Love @nextflowio? 🍏Contributed to @nf_core? 🧬Experienced with NGS data analysis? ☁️Savvy with Cloud infrastructure? 🚀Used the Seqera Platform? We are recruiting for a Bioinformatics Engineer role in my team @SeqeraLabs seqera.io/careers/bioinf…

@Psy_Fer_ Probably need to see your code for this one - but normally you can just specify the output folder as if it was a Nextflow path (e.g. s3://bucket/outputs/)

How do you go about reliably publishing data to a folder for a pipeline that will work both locally and I'm cloud environments?

I have a @nextflowio pipeline, and the last process I run basically takes all relevant files I want to publish, makes a directory and copies the files in. However I find it very inconsistent. One one system publishdir works, and mkdir in script doesn't, and vice versa on another

The deadline for applications for the 3rd round of the @nextflowio and @nf_core #mentorship is approaching. You've until Sunday, the 14th to apply! We've collected testimonials from mentees/mentors in the 2nd round of the #Nextflow and #nfcore mentorship sponsored by @cziscience:

@nilshomer Are you using spot or on demand?

Patience is the great equalizer in business. But if I could be allocated an F1 instance sometime in the next 24 hours… #Bioinformatics

🚨Just a reminder that the deadline for applying to the 3rd round of the #Nextflow and #nf_core mentorship closes on May, 1st! 😉 More info at nf-co.re/mentorships In the meantime, read our blog post about the second round that just ended 🤩 nextflow.io/blog/2023/czi-…

@ellierboardman War, death, pestilence and famine.

@chrisnrg @nextflowio @nanopore Come to think of it, these are all small problems that compound. Less experience with Groovy -> poor debugging -> I miss a weird case.

@chrisnrg @nextflowio @nanopore Completely agree with all of these points. I'm glad it's not just me!

A retrospective of our experience at #epi2melabs of using @nextflowio to deliver bioinformatic workflows for @nanopore data analysis labs.epi2me.io/two-years-of-n…

@adamtranter And it connects to a rubbish shared use lane along Myton Road.

It’s quite old now and it’s not perfect. But it works and is really well used accordingly. It is part of NCN41 and connects suburbs of Warwick and Leamington Spa.

Off-road paths are often shared use, resulting in a suboptimal experience for both cyclists and pedestrians. But this path I use works nicely: ✅ Cyclists and pedestrians separate ✅ Well lit for all-year-round use ✅ Connected to housing Simple but makes all the difference.

@nilshomer Can large water dwelling mammals apply?

Except for my high school best friend, he is not allowed to apply.

Join us fully #remote @fulcrumgenomics We're looking for the experts in #Bioinformatics. Requirements: ‣ Curious, Conscientious, Client-Focused ‣ Demonstrated expertise in a #Bioinformatics area, familiarity in a few others ‣ US-based #hiring #jobs #genomics

🚨 NEW INITIATIVE 🚨 With funding from @cziscience we are offering a new mentorship program for @nextflowio and @nf_core 🎉 If you're looking to get into the world of workflows, have a look! Applications are now open for both mentors and mentees: nf-co.re/mentorships 🤝 (1/4)

@samstudio8 Just wait until you try the VSCode integration…

@samstudio8 I criticise Azure for a lot of things, but documentation is not one of them.

reading azure documentation for the first time

@GonzaParra_ @nilshomer @DNAed_tech Your point still stands though, lack of transparency lowers salaries for everyone.

@nilshomer @DNAed_tech Oh noooo.. I should not have asked!!! Now this number will echo in my mind for weeks! 😱

Come do your post-doc with us, we pay better. Regards, industry. #Bioinformatics

@FairweatherD @Al_Humphreys All of it, but especially the Fairy Glen.

What is the best river in the UK? (Photo optional, but welcome.)

@harryinashed I bought a mesh system recently, don't know why I didn't do it sooner. Reminds me of this: theoatmeal.com/comics/no_inte…

@mahtabm81 BQSR and VQSR are good self-contained examples.

My mentee, a fresh PhD student, wants to know what machine learning/deep learning techniques are used on SNIP data. I have a lot of bioinformaticians in my network. Can anyone point her to the right direction?

@chris_penfold You can have more than 16,384 columns with post it notes.

@adamrtalbot Too high tech to me, I like to write all my important ideas on the back of an envelope

Bioinformatics people ... what is the best way to identify homologies between poorly annotated genomes e.g., I have a relatively under-curated genome and a gft file. I want to see if any of those gene models align to any gene models in say, mouse, or human