A curated list of nextflow based pipelines
☆622Jun 23, 2025Updated 9 months ago
Alternatives and similar repositories for awesome-nextflow
Users that are interested in awesome-nextflow are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A curated collection of Nextflow implementation patterns☆369Nov 21, 2023Updated 2 years ago
- A DSL for data-driven computational pipelines☆3,331Updated this week
- FlowCraft: a component-based pipeline composer for omics analysis using Nextflow.☆248Aug 10, 2025Updated 7 months ago
- Example Nextflow pipelines and programming techniques☆107Sep 19, 2025Updated 6 months ago
- GATK RNA-Seq Variant Calling in Nextflow☆138Dec 14, 2022Updated 3 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Nextflow training material for introductory tutorial☆107May 13, 2022Updated 3 years ago
- Python package with helper tools for the nf-core community.☆297Updated this week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,235Updated this week
- Nextflow basic tutorial for newbie users☆33Jun 17, 2018Updated 7 years ago
- Nextflow language support for Visual Studio Editor☆37Updated this week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,308Updated this week
- DEPRECIATED! Please use nf-core/tools instead☆19Aug 8, 2018Updated 7 years ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,430Mar 12, 2026Updated 2 weeks ago
- Deep Variant as a Nextflow pipeline☆30Jul 24, 2020Updated 5 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Nextflow Tower system☆153Jan 30, 2025Updated last year
- Bioinformatics containers☆779Feb 4, 2026Updated last month
- A proof of concept of RNAseq pipeline☆84Jan 23, 2026Updated 2 months ago
- Repository to host tool-specific module files for the Nextflow DSL2 community!☆405Updated this week
- Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis☆1,027Aug 24, 2024Updated last year
- List of IARC bioinformatics pipelines and resources☆56Mar 18, 2026Updated last week
- An automated RNA-seq pipeline using Nextflow☆37Dec 17, 2025Updated 3 months ago
- RNAseq analysis notes from Ming Tang☆1,075Nov 15, 2021Updated 4 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆831Feb 10, 2026Updated last month
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- RNA mapping pipeline☆18Jun 3, 2018Updated 7 years ago
- Tips for Nextflow and cheatsheet for channel operation☆79Aug 14, 2024Updated last year
- A flexible Nextflow-based framework for the definition of sequencing data processing pipelines☆44Nov 7, 2019Updated 6 years ago
- Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis inclu…☆1,419May 31, 2023Updated 2 years ago
- Plot structural variant signals from many BAMs and CRAMs☆562Jul 13, 2024Updated last year
- Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing☆133Jan 27, 2020Updated 6 years ago
- Config files used to define parameters specific to compute environments at different Institutions☆108Mar 20, 2026Updated last week
- A curated list of awesome Bioinformatics libraries and software.☆3,910Feb 28, 2026Updated 3 weeks ago
- Nanopore demultiplexing, QC and alignment pipeline☆221Nov 20, 2025Updated 4 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Nextflow plugin for VIM☆50May 27, 2023Updated 2 years ago
- Nextflow training material☆233Updated this week
- Pipeline to fetch metadata and raw FastQ files from public databases☆189Feb 8, 2026Updated last month
- A proof of concept RNA-Seq pipeline with Nextflow☆33Jan 13, 2021Updated 5 years ago
- conda recipes for genomic data☆84Jul 31, 2021Updated 4 years ago
- Please consider using/contributing to https://github.com/nf-core/sarek☆41Jul 13, 2021Updated 4 years ago
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆184Updated this week