nf-core
@nf_core
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A community effort to collect a curated set of analysis pipelines built using Nextflow. Mastodon: @[email protected]
Joined February 2018
The @nf_core paper is out in @NatureBiotech ! 🍾 https://t.co/ZnPGuFDBd1 📖🤓 Read about how the @nf_core framework provides community-curated @nextflowio bioinformatics pipelines, ready for use across any institute or research facility ✨🧬🧫🖥️ (1/5)
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Pipeline release! nf-core/pixelator v2.1.0 - nf-core/pixelator 2.1.0! Please see the changelog:
github.com
[2.1.0] - 2025-09-17 Enhancements & fixes Move to using quay.io as the container source, to avoid issues with users needing to login to access the Github Container Registry by @johandahlberg i...
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Pipeline release! nf-core/pixelator v2.0.0 - nf-core/pixelator 2.0.0! Please see the changelog:
github.com
This release is a major update of the nf-core/pixelator pipeline. It brings in support for the Proximity Network Analysis (PNA) workflow in addition to the Molecular Pixelation (MPX) workflow. Any ...
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Pipeline release! nf-core/oncoanalyser v2.0.0 - 2.0.0 - Flame Robin! Please see the changelog:
github.com
Overview Updated to the latest WiGiTS tools (fka hmftools) Added REDUX [WiGiTS] Added NEO for neoepitope calling [WiGiTS] Replaced SvPrep / GRIDSS / GRIPSS with ESVEE [WiGiTS] Removed MarkDups [Wi...
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Pipeline release! nf-core/scnanoseq v1.1.0 - nf-core/scnanoseq v1.1.0 - Iron Alligator! Please see the changelog:
github.com
Enhancements Inputs for IsoQuant are split on chromosome to allow for faster processing The read counts QC metric is now able to leverage NanoPlot counts if FastQC is skipped Added oarfish as an o...
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Bring along anything you are working on and meet others in the Asia Pacific Nextflow and nf-core community. For more information and links, see the nf-core blog post: https://t.co/Apf2VYqIqF
nf-co.re
Join the APAC community for a weekly help desk.
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Who: - Anyone When: - Wednesdays, 3.00 PM NZDT - Wednesdays, 1.00 PM AEDT - Wednesdays, 12.30 PM ACDT - Wednesdays, 12.00 PM AEST - Wednesdays, 11.30 AM ACST - Wednesdays, 11.00 AM AWST Where: - Gather Town
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nf-core weekly help desk is coming to Asia Pacific! After the success of the European and American time zones, help desk is coming to Asia Pacific starting Wednesday, March 12. Join this week's hosts, @awgymer and @Chris_Hakk, and discuss all things Nextflow & nf-core.
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Pipeline release! nf-core/demultiplex v1.6.0 - 1.6.0! Please see the changelog:
github.com
What's Changed Add samplesheet generation for sarek/methylseq by @lmfaber in #308 Replace [] with null as default by @FriederikeHanssen in #310 New Contributors @lmfaber made their first con...
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Pipeline release! nf-core/sarek v3.5.1 - 3.5.1 - Akkatjåkkå! Please see the changelog:
github.com
What's Changed Changed Bump schema version to 2.2.1 in #1767 by @FriederikeHanssen Merge intervals for WES in GATK GenomicsDBImport in #1777 by @tdanhorn Fixed Use file-path-pattern over fil...
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I thought I'd post it first, but Sara beat me to it... We have published SAMURAI, a reproducible pipeline to analyze data from shallow whole-genome sequencing experiments, leveraging the great @nf_core framework and @nextflowio. https://t.co/jxZWP5LB8h
academic.oup.com
Abstract. Shallow whole-genome sequencing (sWGS) offers a cost-effective approach to detect copy number alterations (CNAs). However, there remains a gap fo
SAMURAI, our CNA detection pipeline for shallow WGS, is now published in @BriefingBioinfo! 🎉 My first first-author publication! Check out our work here ⤵️ https://t.co/iTPdUFlic1
#bioinformatics #CNA #WGS
@LabRomualdi @gstarwind
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Pipeline release! nf-core/nanostring v1.3.1 - v1.3.1 - 2025-01-20 - Micrometre patch! Please see the changelog:
github.com
Added #94 - Added nf-tests for local subworkflows NORMALIZE and QUALITY_CONTROL. #99 - Added nf-tests for local module NACHO_NORMALIZE. #100 - Added nf-tests for local module NACHO_QC. #101 - Adde...
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Pipeline release! nf-core/pixelator v1.4.0 - nf-core/pixelator v1.4.0! Please see the changelog:
github.com
What's Changed Important! Template update for nf-core/tools v3.0.2 by @nf-core-bot in #111 Add graph refinement options for pixelator 0.19 by @fbdtemme in #112 Fix validation issues after nf-c...
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This is an exciting one - the first @nf_core pipeline for remotely sensed satellite imagery 🛰️ alongside auxiliary data. It produces a set of trend files related to land-cover changes 🌍 Congrats to Felix Kummer and team on this milestone! 🎉
Pipeline release! nf-core/rangeland v1.0.0 - nf-core/rangeland 1.0.0! Please see the changelog:
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Pipeline release! nf-core/rangeland v1.0.0 - nf-core/rangeland 1.0.0! Please see the changelog:
github.com
What's Changed Important! Template update for nf-core/tools v2.14.1 by @nf-core-bot in #6 Important! Template update for nf-core/tools v3.0.2 by @nf-core-bot in #10 Addressing review suggestio...
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Interested in #nfcore #nextflow #pipelines? 🐛 Need help setting up/debugging a pipeline/run? 🦆 Developing a pipeline and need brainstorming? 🗣️ Join the @nf_core weekly helpdesk w/ experts! 1st EMEA-APAC session of 2025 today @ 10:00 (CET) on
nf-co.re
Read about the different ways you can get involved with nf-core
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Pipeline release! nf-core/taxprofiler v1.2.2 - v1.2.2 - Bouncy Basenji Patch! Please see the changelog:
github.com
Added #558 Updated to nf-core pipeline template v3.1.0 (added by @LilyAnderssonLee) #565 Updated to nf-core pipeline template v3.1.1 (added by @LilyAnderssonLee) Fixed #561 Updated Centrifuge to...
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You wonder what we do at @nf_core #hackathons? Should you sign up? Should you even host a local hackathon site? You can find answers and information about the nf-core hackathons in a nf-core bytesize talk by @RikeHanssen:
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See the hackathon event page for more details, or jump into the @nf_core slack and join the "#hackathon-mar-2025" channel ✨ https://t.co/8NOKhZ5rSy
nf-co.re
A virtual hackathon with local sites to develop nf-core together
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Hosting a local site is simple, all you need to do is book a venue and advertise 😄 Many sites choose to combine this with training - for example, doing a "Nextflow watch party" to follow the online videos together as a group. See https://t.co/21iZIFziaX for more
seqera.io
Seqera | The Home for Open Science | From the developers of Nextflow, Wave, and MultiQC
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We've just put up the first batch of local sites for the upcoming @nf_core #hackathon (March 2025) on the website: https://t.co/AFLFzsrxX2 We've had a great response so far, with 23 sites (a record!), but we'd love more! Are you able to book a meeting room for a local site?
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