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@GlobalPneumoSeq Global Pneumococcal Sequencing (GPS) Project

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    9 repositories

    • .github

      Public
      GitHub Profile Page
      0•0•0•0•Updated Feb 11, 2026Feb 11, 2026

    • fastq-to-microreact

      Public
      A tutorial on how to go from raw read sequencing files (FASTQ) to a Microreact visualisation instance
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 7, 2026Feb 7, 2026

    • seroba

      Public
      SeroBA v2
      Python
      •
      Other
      •20•5•3•0•Updated Feb 3, 2026Feb 3, 2026

    • gps-pipeline

      Public
      Nextflow Pipeline for processing Streptococcus pneumoniae sequencing raw reads (FASTQ files) by the GPS Project (Global Pneumococcal Sequencing Project)
      pipelinegenomicsnextflowfastqinsilicostreptococcus-pneumoniae
      Nextflow
      •
      GNU General Public License v3.0
      •11•20•0•0•Updated Jan 28, 2026Jan 28, 2026

    • gpsc-reference-genomes

      Public
      The reference genomes for common Global Pneumococcal Sequence Clusters (GPSCs)
      0•1•0•0•Updated Nov 20, 2025Nov 20, 2025

    • cps_extractor

      Public
      NextFlow pipeline which extracts capsular locus sequences (CPS) and checks for disruptive mutations
      Python
      •1•2•1•0•Updated Oct 23, 2025Oct 23, 2025

    • cps_reference_database

      Public
      JavaScript
      •1•0•0•0•Updated Aug 13, 2025Aug 13, 2025

    • spn-pbp-amr

      Public
      PBP resistance assignment for Streptococcus pneumoniae
      Perl
      •
      MIT License
      •2•0•0•0•Updated Jan 6, 2025Jan 6, 2025

    • Gladstone-et-al-MGEN-2019

      Public archive
      Recombination masked lineage alignment
      0•0•0•0•Updated Sep 23, 2019Sep 23, 2019