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@stephenslab @conda-forge @bioconda @satRdays @workflowr @ClevelandRUserGroup

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9 stars written in Nextflow
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RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

Nextflow 1,193 842 Updated Feb 5, 2026

Repository to host tool-specific module files for the Nextflow DSL2 community!

Nextflow 394 962 Updated Feb 5, 2026

GATK RNA-Seq Variant Calling in Nextflow

Nextflow 138 50 Updated Dec 14, 2022

Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue

Nextflow 57 16 Updated Sep 30, 2025

A set of workflows written in Nextflow for Genome Annotation.

Nextflow 46 18 Updated Jan 28, 2026

Proteomics label-free quantification (LFQ) analysis pipeline

Nextflow 37 20 Updated Jan 13, 2025

Nextflow basic tutorial for newbie users

Nextflow 33 18 Updated Jun 17, 2018

Workflow management with Nextflow and nf-core

Nextflow 29 40 Updated Jan 21, 2025

Proof-of-concept Nextflow pipeline to interact with OpenAI Whisper

Nextflow 10 2 Updated Jun 17, 2025