A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

me at every new seqera product presentation <https://xkcd.com/3227>

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`nf-core modules update` saves the day again (shoutout to <@UE6D8290F> et al. for the cooler version)

<@U05J6TZMJ11>  I want a quacken sticker for my laptop. Let me know when your colleague has them ready... :grin:

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I thought a module refactor cannot be that complicated. Turns out it took 3 days to even open a PR.

<https://nfcore.slack.com/archives/CJRH30T6V/p1778249949754749?thread_ts=1778247480.459089&amp;cid=CJRH30T6V|https://nfcore.slack.com/archives/CJRH30T6V/p1778249949754749?thread_ts=1778247480.459089&amp;cid=CJRH30T6V>

This should have stayed buried safely in that thread!

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My thoughts after calling it twice in one PR

<https://tanstack.com/blog/npm-supply-chain-compromise-postmortem#root-cause|You open a malicious PR, poison the cache, exfiltrate the AWS token and use those credentials…> :woozy_face:

the python templating framework nf-core uses according to <@UEM37TBAR> <https://64.media.tumblr.com/10abcd7f5a48a2d25c58118d390cd66d/bddc213d5cb99635-9c/s540x810/c1b0b435999845d8b346811347d87b793154b172.gifv> :stuck_out_tongue_winking_eye:

I just assumed all of python was named after cool comedians and musical artist, obviosuly :wink:

turned out it was nothing a good ol' rerun could not fix.. but sure had me questioning my markdown skills for a second there

Imagine trying to explain to your boomer grandfather why having rust everywhere is a good thing  :joy:

I foresee this as the name of the language that will dethrone rust:laughing:

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This is not the right channel for <#C05QZ5J90SV>. Please only post there

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<@U0BAA05JQBE> please follow our instructions/policies. If you post about your product outside of <#C05QZ5J90SV> again.., we will unfortunately have to ban you

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Theory: they wrote this pipeline just to make this joke 

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Reviews of <https://github.com/nf-core/agents/pull/2> without context (huge thanks to the group on the right, the document is way cleaner now)

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kind of sad to be able to remove this line now:

<https://github.com/nf-core/tools/pull/3954/changes/2781de8d6742bceaf4545334e7e60ebd134a9b8f>

Could you please comment the regex and change the comment to "Thanks god we don't have to use that regex anymore" :pray: :rolling_on_the_floor_laughing:

Am I tripping or you are replacing this regex with a better regex?

Can't imagine Nico doing anything other than single-cell:laughing:what a jack of all trades

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<https://nfcore.slack.com/archives/C0853MQJJHW/p1786530813534169|https://nfcore.slack.com/archives/C0853MQJJHW/p1786530813534169>

:heart: for all the people spending their time thoroughly reviewing PRs and improving the overall quality of what gets released

Not a meme. A bit concerning actually, but funny! Tried out Seqera co-scientist for the first time. Seems like I can just talk this thing into anything. I will say, it makes one hell of a pun! Also wrote me a script to mine bitcoin :smile:

As long as it's a _nextflow pipeline_ to mine bitcoin, that's allowed :laughing:

Ok <@UE4L64T4G>, I consider you now the 50% co-partner for our new Nextflow-based Hedge fund :joy:

Here, co-scientist even helped us with the name!
Channel Capital— channels are the core data flow primitive in Nextflow
1. Fork &amp; Join Partners— after the parallel execution pattern
2. Pipeline Alpha— pipelines + alpha (excess returns)
3. Operator Capital Management— operators transform channels, you transform capital
4. DAG Ventures— Directed Acyclic Graph, the execution model
5. Workflow Capital— clean and straightforward
6. Emit Capital— processes_emit_outputs into channels
7. Scatter-Gather Fund— the parallelization pattern
8. NextFlow Capital— on the nose, but works
9. Resume Partners—`-resume`is the magic flag that saves you from recomputing everything… much like not panic-selling


Here's an initial business plan:

1. Make Nextflow pipeline
2. ...
3. PROFIT!!!

Good one from <@U05LNHCFLCW> :sweat_smile:

In light of the relevant upcoming hackathon project...Release the Agents!

A little foretaste for the bytesize of this afternoon :wink:

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When your first release depends on a fix in someone else's module. No pressure, <@U05LNHCFLCW> haha

Plus, it's not mine, it's everyone's. Open source blame

<https://nfcore.slack.com/archives/C05V9FRJYMV/p1791981569380699?thread_ts=1791958963.092199&amp;cid=C05V9FRJYMV|https://nfcore.slack.com/archives/C05V9FRJYMV/p1791981569380699?thread_ts=1791958963.092199&amp;cid=C05V9FRJYMV>

TL;DR, we need someone with a bunch of tokens to rewrite GATK

Hahahaha :smile: yeah, and send the link to Broad

I will never take those metromaps for granted again :laughing: