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    12 repositories

    • GATK-flow

      Public
      Nextflow implementation of the GATK HaplotypeCaller pipeline
      nextflowgatk
      nextflowgatk
      Nextflow
      •2•13•2•1•Updated Dec 27, 2025Dec 27, 2025

    • assemblyStats

      Public
      Run Assembly statistics on a genome assembly (BUSCO and assemblyStats and new_Assemblathon.pl)
      swiftnextflowbusco
      swiftnextflowbusco
      Perl
      •4•5•1•0•Updated Aug 6, 2025Aug 6, 2025

    • polishCLR

      Public
      A nextflow pipeline for polishing CLR assemblies
      bioinformaticspipelinegenomics
      bioinformaticspipelinegenomicsnextflowarrowassemblyfreebayesbuscomerqurymerfin
      Nextflow
      •4•18•5•0•Updated Feb 3, 2023Feb 3, 2023

    • blast

      Public
      NextFlow implementation of BLAST program
      Nextflow
      •
      MIT License
      •4•3•3•0•Updated Jan 23, 2023Jan 23, 2023

    • freebayes

      Public
      Freebayes parallelization using nextflow
      Nextflow
      •0•0•0•0•Updated Aug 1, 2022Aug 1, 2022

    • bwamem2

      Public
      Nextflow
      •0•0•0•0•Updated May 4, 2022May 4, 2022

    • nanoPolish

      Public
      Polish a nanopore assembly using Racon and Medaka
      nextflowraconmedoka
      nextflowraconmedoka
      Nextflow
      •0•0•0•0•Updated Nov 22, 2021Nov 22, 2021

    • nanoQCtrim

      Public
      Performs Nanoplot QC using nanoplot and adaptor trimming using downpore
      Shell
      •0•1•4•0•Updated Oct 20, 2021Oct 20, 2021

    • alphafold

      Public
      fast draft, quick testing
      Nextflow
      •0•0•0•0•Updated Aug 19, 2021Aug 19, 2021

    • RNAseq

      Public
      RNAseq from fastq reads to gene counts/quantification
      nextflowmultiqcsalmon
      nextflowmultiqcsalmonkallistogsnapfastqc
      Nextflow
      •0•0•0•0•Updated Aug 13, 2021Aug 13, 2021

    • parallel

      Public
      Nextflow
      •0•1•2•0•Updated Feb 11, 2021Feb 11, 2021

    • tutorial

      Public
      Tutorial on how to use nextflow to create a workflow for blast
      Nextflow
      •1•4•0•0•Updated Sep 17, 2020Sep 17, 2020
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