@nf-core

nf-core

A collection of high quality Nextflow pipelines

Pinned repositories

  1. tools

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

    Python 14 14

  2. logos

    contains logos for nf-core

    Shell 1 4

  3. nf-co.re

    Files for the main nf-core website >>>

    PHP 2 8

  4. rnaseq

    Forked from ewels/nf-core-rnaseq

    RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

    Nextflow 40 21

  5. methylseq

    Forked from ewels/nf-core-methylseq

    Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

    Nextflow 15 15

  6. hlatyping

    Forked from qbicsoftware/hlatyping-workflow

    Precision HLA typing from next-generation sequencing data

    Nextflow 5

  • RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

    Nextflow 40 70 MIT Updated Sep 23, 2018
  • Assembly and intrahost / low-frequency variant calling for viral samples

    Nextflow 3 6 MIT Updated Sep 21, 2018
  • Python package with helper tools for the nf-core community.

    Python 14 14 MIT 4 issues need help Updated Sep 20, 2018
  • Files for the main nf-core website >>>

    PHP 2 8 MIT 1 issue needs help Updated Sep 19, 2018
  • Test data to be used for automated testing with the nf-core pipelines

    2 9 MIT Updated Sep 18, 2018
  • Precision HLA typing from next-generation sequencing data

    Nextflow 7 MIT Updated Sep 12, 2018
  • Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

    Nextflow 15 26 MIT Updated Sep 11, 2018
  • Chromatin immunoprecipitation (ChIP-seq) analysis using BWA and MACS2 with QC steps.

    Nextflow 13 33 MIT Updated Aug 31, 2018
  • WORK IN PROGRESS: Hopefully soon a fully reproducible and modern ancient DNA pipeline in Nextflow and with cloud support.

    Nextflow 7 5 MIT 1 issue needs help Updated Aug 24, 2018
  • Exome Sequencing analysis pipeline (Work in progress)

    Nextflow 6 14 MIT Updated Aug 23, 2018
  • Analysis pipeline for small-RNA sequencing data.

    Nextflow 19 MIT Updated Aug 10, 2018
  • UNDER CONSTRUCTION: Assembly, binning and annotation of metagenomes.

    Nextflow 5 2 MIT Updated Aug 9, 2018
  • DEPRECIATED! Please use nf-core/tools instead

    Nextflow 21 8 MIT Updated Aug 8, 2018
  • contains logos for nf-core

    Shell 1 4 MIT Updated May 7, 2018
  • Now replaced with a new website >>>

    Ruby 7 4 Updated May 5, 2018