A DSL for data-driven computational pipelines
☆3,409Jun 6, 2026Updated this week
Alternatives and similar repositories for nextflow
Users that are interested in 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 list of nextflow based pipelines☆627Jun 23, 2025Updated 11 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,455May 20, 2026Updated 2 weeks ago
- A curated collection of Nextflow implementation patterns☆372Nov 21, 2023Updated 2 years ago
- This is the development home of the workflow management system Snakemake. For general information, see☆2,806Updated this week
- Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale product…☆1,068Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Nextflow Tower system☆155Jan 30, 2025Updated last year
- Repository to host tool-specific module files for the Nextflow DSL2 community!☆416Updated this week
- Simple test framework for Nextflow pipelines☆187Apr 27, 2026Updated last month
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,370Jun 1, 2026Updated last week
- Python package with helper tools for the nf-core community.☆311Updated this week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,307May 12, 2026Updated 3 weeks ago
- Toolkit for processing sequences in FASTA/Q formats☆1,541Jun 1, 2025Updated last year
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆573Updated this week
- FlowCraft: a component-based pipeline composer for omics analysis using Nextflow.☆249Aug 10, 2025Updated 9 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Specification for the Workflow Description Language (WDL).☆850May 27, 2026Updated last week
- Official code repository for GATK versions 4 and up☆1,962Updated this week
- DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.☆3,712Mar 19, 2026Updated 2 months ago
- Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊☆1,480Jan 8, 2026Updated 4 months ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,569Jun 1, 2026Updated last week
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆856May 2, 2026Updated last month
- Params validation plugin for Nextflow pipelines☆48Aug 7, 2024Updated last year
- The next version of bwa-mem☆837Oct 15, 2025Updated 7 months ago
- A curated list of awesome Bioinformatics libraries and software.☆4,081Apr 7, 2026Updated 2 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A WDL, CWL and Python API supporting easy-to-use workflow engine. It is scalable, efficient and cross-platform (Linux/macOS).☆931Updated this week
- Tools to process and analyze deep sequencing data.☆759Jul 23, 2025Updated 10 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,193May 19, 2026Updated 2 weeks ago
- Bioinformatics containers☆792May 29, 2026Updated last week
- Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…☆893May 22, 2026Updated 2 weeks ago
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,748Mar 22, 2025Updated last year
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,911May 21, 2026Updated 2 weeks ago
- Cloud-native genomic dataframes and batch computing☆1,064Updated this week
- Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing☆134Jan 27, 2020Updated 6 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,068Apr 25, 2026Updated last month
- A flexible pipeline for complete analysis of bacterial genomes☆516May 21, 2026Updated 2 weeks ago
- Nextflow training material☆248May 16, 2026Updated 3 weeks ago
- A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin☆6,587Apr 17, 2026Updated last month
- Test data to be used for automated testing with the nf-core pipelines☆162May 31, 2026Updated last week
- GATK RNA-Seq Variant Calling in Nextflow☆137Dec 14, 2022Updated 3 years ago
- Conda recipes for the bioconda channel.☆1,832Updated this week