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@nf-cmgg Center For Medical Genetics Ghent - Nextflow workflows

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    10 repositories

    • germline

      Public
      A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data
      annotationngsgermlinecramngs-pipelinegenotypinggermline-variant-callingshort-reads
      Nextflow
      •
      MIT License
      •1•7•7•3•Updated Oct 8, 2024Oct 8, 2024

    • preprocessing

      Public
      Preprocessing workflow for sequencing data at CMGG
      Nextflow
      •
      MIT License
      •2•3•3•0•Updated Oct 1, 2024Oct 1, 2024

    • structural

      Public
      A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads
      annotationrepeatsngscnvcramstructural-variationngs-pipelinenextflow-pipelineshort-reads
      Nextflow
      •
      MIT License
      •2•19•18•0•Updated Sep 24, 2024Sep 24, 2024

    • configs

      Public
      Nextflow config files
      MIT License
      •1•0•0•0•Updated Sep 3, 2024Sep 3, 2024

    • exomecnv

      Public
      A nextflow pipeline for calling exome CNVs
      Nextflow
      •
      MIT License
      •2•8•0•1•Updated Jul 10, 2024Jul 10, 2024

    • test-datasets

      Public
      Test datasets for unit tests with the nf-cmgg pipelines
      MIT License
      •1•0•0•0•Updated May 30, 2024May 30, 2024

    • wisecondorx

      Public
      A nextflow pipeline for creating references for WisecondorX
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Apr 24, 2024Apr 24, 2024

    • sampletracking

      Public
      CMGG Sampletracking workflow
      Nextflow
      •
      MIT License
      •0•0•2•0•Updated Mar 26, 2024Mar 26, 2024

    • nextflow-beginner-feb-2024

      Public
      The repository used at the Beginner Nextflow course in february 2024
      Nextflow
      •
      MIT License
      •1•5•0•0•Updated Feb 7, 2024Feb 7, 2024

    • qdnaseq

      Public
      A Nextflow pipeline to create qDNAseq bin annotations
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Sep 7, 2023Sep 7, 2023