Repositories list

• sm-vcf-annotation

  Public
  Snakemake scripts to annotate VCF files using SnpEff and SnpSift

  Python

  •

  MIT License

  •0•0•4•0•Updated Dec 12, 2024Dec 12, 2024

• merge-multisample-vcf

  Public
  Python

  •0•1•3•0•Updated Dec 1, 2024Dec 1, 2024

• apa-sequencing

  Public
  Code for the aldosterone-producing adenoma sequencing project

  Python

  •

  MIT License

  •0•0•12•0•Updated Sep 5, 2024Sep 5, 2024

• plasmicheck

  Public
  Detect and quantify plasmid DNA contamination in sequencing data

  bioinformaticsgenomicsnext-generation-sequencing+ 4plasmidcontamination-detectionminimap2splicing

  Python

  •

  MIT License

  •0•0•32•0•Updated Aug 21, 2024Aug 21, 2024

• vcf-filtering

  Public
  A collection of scripts for filtering annotated variant call format files

  geneticsvcfbcftools+ 5snpeffrare-variant-analysisrare-diseasekidney-diseasesnpsift

  Shell

  •

  MIT License

  •1•4•34•0•Updated Jul 19, 2024Jul 19, 2024

• sm-calling

  Public
  Python

  •

  MIT License

  •0•0•9•0•Updated Jul 18, 2024Jul 18, 2024

• sm-alignment

  Public
  Python

  •

  MIT License

  •0•0•16•0•Updated May 30, 2024May 30, 2024

• command-chest

  Public
  A collection of assorted tools, command lines and scripts

  Python

  •

  MIT License

  •0•0•2•0•Updated Dec 7, 2023Dec 7, 2023

• gckd_multisample_vcf

  Public
  Commands to merge and annotate GCKD single sample VCFs

  Shell

  •

  MIT License

  •0•0•3•0•Updated Oct 30, 2023Oct 30, 2023