Pipeline release! nf-core/rnaseq v3.23.0 - nf-core/rnaseq v3.23.0 - Gallium Gecko!
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Please see the changelog: https://github.com/nf-core/rnaseq/releases/tag/3.23.0

#rna #rnaseq #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/seqinspector v1.0.0 - nf-core/seqinspector 1.0.0 - Inspector Gadget!
Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and group specific Multiqc reports. The pipeline is targeting core facilities or research groups with larger sequencing throughput.
Please see the changelog: https://github.com/nf-core/seqinspector/releases/tag/1.0.0

#genomics #qualitycontrol #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/coproid v2.0.1 - v2.0.1 - Greedy Gobbler!
Coprolite host Identification pipeline
Please see the changelog: https://github.com/nf-core/coproid/releases/tag/2.0.1

#adna #ancientdna #coprolite #microbiome #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/taxprofiler v1.2.6 - v1.2.6 - Bouncy Basenji Patch!
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Please see the changelog: https://github.com/nf-core/taxprofiler/releases/tag/1.2.6

#classification #illumina #longreads #metagenomics #microbiome #nanopore #pathogen #profiling #shotgun #taxonomicclassification #taxonomicprofiling #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/pathogensurveillance v1.1.0 - 1.1.0!
Surveillance of pathogens using population genomics and sequencing
Please see the changelog: https://github.com/nf-core/pathogensurveillance/releases/tag/1.1.0

#nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/sarek v3.8.1 - 3.8.1 - Laitaure!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.8.1

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/createtaxdb v2.1.0 - v2.1.0 - Gracious Goblin - [2026-02-10]!
Parallelised and automated construction of metagenomic classifier databases of different tools
Please see the changelog: https://github.com/nf-core/createtaxdb/releases/tag/2.1.0

#database #databasebuilder #metagenomicprofiling #metagenomics #profiling #taxonomicprofiling #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/rnavar v1.2.3 - nf-core/rnavar 1.2.3 - Yellow Hammer Head!
gatk4 RNA variant calling pipeline
Please see the changelog: https://github.com/nf-core/rnavar/releases/tag/1.2.3

#gatk4 #rna #rnaseq #variantcalling #worflow #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/sarek v3.8.0 - 3.8.0 - Sitojaure!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.8.0

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/proteinannotator v1.0.0 - Yellow Saiga!
Generation of sequence-level annotations for amino acid sequences
Please see the changelog: https://github.com/nf-core/proteinannotator/releases/tag/1.0.0

#annotation #proteomics #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/airrflow v5.0.0 - Tarantallegra!
B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
Please see the changelog: https://github.com/nf-core/airrflow/releases/tag/5.0.0

#airr #bcell #immcantation #immunorepertoire #repseq #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/mag v5.4.0 - mag 5.4.0 - Yellow Frog!
Assembly and binning of metagenomes
Please see the changelog: https://github.com/nf-core/mag/releases/tag/5.4.0

#annotation #assembly #binning #longreadsequencing #metagenomes #metagenomics #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/hlatyping v2.2.0 - 2.2.0 - Holocron!
Precision HLA typing from next-generation sequencing data
Please see the changelog: https://github.com/nf-core/hlatyping/releases/tag/2.2.0

#dna #hla #hlatyping #immunology #optitype #personalizedmedicine #rna #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/nanostring v1.3.3 - v1.3.3 - 2026-01-30 - Micrometer patch 3!
An analysis pipeline for Nanostring nCounter expression data.
Please see the changelog: https://github.com/nf-core/nanostring/releases/tag/1.3.3

#nanostring #nanostringnorm #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/demo v1.1.0 - nf-core/demo 1.1.0 - Grammar Police!
nf-core/demo is a simple nf-core style bioinformatics pipeline for workshops and demos.
Please see the changelog: https://github.com/nf-core/demo/releases/tag/1.1.0

#demo #minimalexample #training #tutorial #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/pairgenomealign v2.2.2 - nf-core/pairgenomealign v2.2.2 – Juicy!
Pairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the results
Please see the changelog: https://github.com/nf-core/pairgenomealign/releases/tag/2.2.2

#comparativegenomics #dotplot #genomics #last #pairwisealignment #synteny #wholegenomealignment #nfcore #openscience #nextflow #bioinformatics

🧑‍💻 Need help with #nfcore #nextflow #bioinformatics pipelines, running or developing?

Please join the 🌍🌎 Eur/M.E./Afr/Americas weekly helpdesk.

Please join our nf-core maintainer @vagkaratzas, this Thursday at 14:30 CET | 08:30 ET on https://play.workadventu.re/@/nf-core/nf-core/office

Pipeline release! nf-core/viralmetagenome v1.1.0 - v1.1.0 - Virid Hen!
A nf-core pipeline for untargeted whole genome reconstruction with iSNV detection from metagenomic samples.
Please see the changelog: https://github.com/nf-core/viralmetagenome/releases/tag/1.1.0

#epidemiology #fastq #ngs #viralmetagenomics #virology #virusgenomes #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/ampliseq v2.16.1 - Ampliseq release 2.16.1 2026-01-23!
Amplicon sequencing analysis workflow using DADA2 and QIIME2
Please see the changelog: https://github.com/nf-core/ampliseq/releases/tag/2.16.1

#16s #18s #ampliconsequencing #edna #illumina #iontorrent #its #metabarcoding #metagenomics #metataxonomics #microbiome #pacbio #qiime2 #rrna #taxonomicclassification #taxonomicprofiling #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/pixelator v2.3.1 - nf-core/pixelator 2.3.1!
Pipeline to generate Molecular Pixelation data with Pixelator (Pixelgen Technologies AB)
Please see the changelog: https://github.com/nf-core/pixelator/releases/tag/2.3.1

#molecularpixelation #pixelator #pixelgentechnologies #proteins #singlecell #singlecellomics #nfcore #openscience #nextflow #bioinformatics