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    23 repositories

    • mea-pipeline

      Public
      Molecular Epidemiology Analytics (MEA) Pipeline
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

    • MicroHaps

      Public
      Python
      •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • ngs-pipeline

      Public
      vivaxGEN NGS pipeline for whole genome and targeted sequencing
      Python
      •
      MIT License
      •0•2•0•0•Updated Oct 1, 2024Oct 1, 2024

    • vgnpc-plasmodium-spp

      Public
      vivaxGEN NGS-Pipeline configuration settings for Plasmodium spp
      Shell
      •
      The Unlicense
      •0•0•0•0•Updated Sep 19, 2024Sep 19, 2024

    • microhaps_mito

      Public
      Python
      •0•0•0•0•Updated Sep 6, 2024Sep 6, 2024

    • G6PD_MinION

      Public
      Pipeline for G6PD genotyping using ONT-based amplicon assay
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 19, 2024Aug 19, 2024

    • stable-tag-tester

      Public
      tester
      0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • vvg-base

      Public
      vivaxGEN base installation utility
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • warpedLMM-py3

      Public
      warpedLMM updated to Python 3.x
      Python
      •
      Other
      •8•0•0•0•Updated Jun 26, 2024Jun 26, 2024

    • muhapsfinder

      Public
      A pipeline to generate microhaplotypes from VCF data
      MIT License
      •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

    • ngs-extension-skeleton

      Public
      Shell
      •0•0•0•0•Updated Jun 12, 2024Jun 12, 2024

    • sra-repo

      Public
      SRA repository management system
      Python
      •
      MIT License
      •0•0•0•0•Updated May 17, 2024May 17, 2024

    • install

      Public
      Repository for installation scripts
      Shell
      •
      The Unlicense
      •0•0•0•0•Updated Apr 28, 2024Apr 28, 2024

    • .github

      Public
      Molecular surveillance of Plasmodium vivax
      0•0•0•0•Updated Mar 8, 2024Mar 8, 2024

    • messy

      Public
      MESSy: Molecular Epidemiology and Surveillance System
      Python
      •
      GNU Lesser General Public License v2.1
      •1•0•0•0•Updated Mar 6, 2023Mar 6, 2023

    • rhombus

      Public
      Add-on library on top of Pyramid web framework.
      Python
      •
      GNU Lesser General Public License v3.0
      •1•0•0•0•Updated Mar 6, 2023Mar 6, 2023

    • mhcftools

      Public
      mhcftools - microhaplotype call format tools
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 16, 2022Nov 16, 2022

    • messy-panelseq

      Public
      MESSy add-on library for handling and processing NGS panel sequencing
      Python
      •
      GNU Lesser General Public License v2.1
      •0•0•0•0•Updated Sep 8, 2022Sep 8, 2022

    • messy-pathogen

      Public
      Add-on library for MESSy for handling pathogen sample data
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 8, 2022Sep 8, 2022

    • ampseq-pipeline

      Public
      Pipeline for amplicon sequencing or panel sequencing
      Python
      •
      MIT License
      •2•0•0•0•Updated Aug 1, 2022Aug 1, 2022

    • hmmIBD

      Public
      A hidden Markov model for detecting segments of shared ancestry (identity by descent)
      C
      •
      GNU General Public License v3.0
      •8•0•0•0•Updated Feb 3, 2022Feb 3, 2022

    • THEREALMcCOIL

      Public
      C
      •7•0•0•0•Updated Jan 10, 2022Jan 10, 2022

    • geo

      Public
      SNP-based geographic barcode platform
      GNU General Public License v2.0
      •0•0•0•0•Updated Jun 2, 2021Jun 2, 2021