Repositories list

• HelperScripts

  Public
  Collection of small helper scripts

  Python

  •0•0•0•0•Updated Apr 22, 2024Apr 22, 2024

• pcr-primer-tool

  Public
  Python

  •1•0•0•0•Updated Feb 5, 2024Feb 5, 2024

• AssembleQCIllumina

  Public
  R

  •0•0•0•0•Updated Apr 14, 2023Apr 14, 2023

• pappenheim

  Public
  ⚔️🏰 Pipeline for sequencing of SARS-CoV-2 on local workstations with realtime (ONT) basecalling

  snakemakenanopore-sequencingsars-cov-2

  R

  •0•2•1•0•Updated Feb 21, 2023Feb 21, 2023

• viraligner

  Public
  R

  •0•0•0•0•Updated Jan 11, 2023Jan 11, 2023

• CoverMon

  Public
  A script that does live read mapping of nanopore sequencing

  Python

  •0•1•0•0•Updated Nov 10, 2022Nov 10, 2022

• assemblycomparator2

  Public
  🦠📇 compare microbial assemblies

  Python

  •3•0•0•0•Updated Oct 28, 2022Oct 28, 2022

• AssembleQCHybrid

  Public
  0•0•0•0•Updated Apr 27, 2022Apr 27, 2022

• pipe19

  Public
  This is the pipeline that handles SARS-CoV-2 samples from Region Midtjylland

  R

  •1•0•0•0•Updated Mar 16, 2021Mar 16, 2021

• spike-sanger

  Public archive
  Sanger sequencing of a region in the SARS-CoV-2 spike gene.

  R

  •0•0•1•0•Updated Mar 5, 2021Mar 5, 2021

• kmapipeline2

  Public archive
  🦠🏗️ This is an as-automated-as-possible pipeline for clinically relevant microbial isolates. (Illumina PE)

  Python

  •1•0•0•0•Updated Jan 7, 2021Jan 7, 2021