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@nf-core

nf-core

A community effort to collect a curated set of analysis pipelines built using Nextflow.
README.md

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  1. tools tools Public

    Python package with helper tools for the nf-core community.

    Python 248 194

  2. modules modules Public

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

    Nextflow 292 753

  3. rnaseq rnaseq Public

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

    Nextflow 988 725

  4. sarek sarek Public

    Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

    Nextflow 424 431

Repositories

Showing 10 of 154 repositories
  • modules Public

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

    nf-core/modules’s past year of commit activity
    Nextflow 292 MIT 753 646 (1 issue needs help) 188 Updated Mar 3, 2025
  • ops Public
    nf-core/ops’s past year of commit activity
    Python 1 2 30 9 Updated Mar 3, 2025
  • molkart Public

    A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)

    nf-core/molkart’s past year of commit activity
    Nextflow 11 MIT 9 13 2 Updated Mar 3, 2025
  • website Public

    Code and files for the main nf-core website.

    nf-core/website’s past year of commit activity
    MDX 72 MIT 222 91 39 Updated Mar 3, 2025
  • funcscan Public

    (Meta-)genome screening for functional and natural product gene sequences

    nf-core/funcscan’s past year of commit activity
    Nextflow 79 MIT 22 14 1 Updated Mar 3, 2025
  • phaseimpute Public

    A bioinformatics pipeline to phase and impute genetic data

    nf-core/phaseimpute’s past year of commit activity
    Nextflow 19 MIT 15 14 1 Updated Mar 3, 2025
  • circrna Public

    circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

    nf-core/circrna’s past year of commit activity
    Nextflow 52 MIT 28 19 5 Updated Mar 4, 2025
  • variantbenchmarking Public

    Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research

    nf-core/variantbenchmarking’s past year of commit activity
    Nextflow 23 MIT 12 17 0 Updated Mar 3, 2025
  • sarek Public

    Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

    nf-core/sarek’s past year of commit activity
    Nextflow 424 MIT 431 283 (3 issues need help) 37 Updated Mar 3, 2025
  • stats Public
    nf-core/stats’s past year of commit activity
    HTML 0 2 14 10 Updated Mar 3, 2025
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