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  1. ninjaMap ninjaMap Public

    Compute strain abundance in a defined microbial community

    Python 10 2

  2. nf-reads-profiler nf-reads-profiler Public

    Nextflow pipeline to run Metaphlan3 and Humann3 on QC-ed reads.

    Nextflow 4 1

  3. nf-ninjamap nf-ninjamap Public

    ninjamap pipeline in nextflow

    Python 4 2

  4. nf-blast nf-blast Public

    Blast tools using Nextflow on AWS Batch using database on a shared file system.

    Nextflow 1

  5. nf-hybridassembly nf-hybridassembly Public

    Hybrid assembly pipeline in nextflow

    Shell 1

  6. nf-cctyper nf-cctyper Public

    Nextflow 1

Repositories

Showing 10 of 34 repositories
  • nf-ninjamap Public

    ninjamap pipeline in nextflow

    Python 4 GPL-3.0 2 0 0 Updated Apr 4, 2025
  • nf-miseq-16s-dada2 Public

    MiSeq 16S DADA2 pipeline in nextflow

    R 0 GPL-3.0 0 0 0 Updated Mar 26, 2025
  • nf-ninjaindex Public

    Nextflow pipeline to build the ninja index for ninjaMap

    Python 0 MIT 0 1 0 Updated Mar 13, 2025
  • nf-amr Public

    Run basic AMRFinderPlus on a set of genomes

    Nextflow 0 GPL-3.0 0 0 0 Updated Mar 12, 2025
  • nf-hybridassembly Public

    Hybrid assembly pipeline in nextflow

    Shell 1 GPL-3.0 0 0 0 Updated Feb 3, 2025
  • nf-Sanger Public

    Sanger assembly and annotation pipeline

    Shell 0 GPL-3.0 0 0 0 Updated Jan 23, 2025
  • nf-bakta Public

    Use Bakta for speedy and consistent genome annotation

    Python 0 GPL-3.0 0 0 0 Updated Jan 7, 2025
  • nf-eggnog Public
    Nextflow 0 0 0 0 Updated Jan 6, 2025
  • nf-readqc Public
    Nextflow 0 GPL-3.0 0 0 0 Updated Dec 17, 2024
  • nf-basespace Public
    Nextflow 0 0 0 0 Updated Dec 3, 2024