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    55 repositories

    • malariagen-data-python

      Public
      Analyse MalariaGEN data from Python
      Jupyter Notebook
      •
      MIT License
      •37•18•91•16•Updated Aug 21, 2025Aug 21, 2025

    • malariagen-pf8-cnv-calling

      Public
      For making Pf8's copy number variation (CNV) calls.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Aug 21, 2025Aug 21, 2025

    • malariagen-pf8-snp-indel-calling

      Public
      For making Pf8's SNP and indel variant calls.
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Aug 15, 2025Aug 15, 2025

    • mgenv

      Public
      Repository with installation scripts and environment definitions for conda and texlive, for standardising environments across the MalariaGEN resource centre team.
      Shell
      •
      MIT License
      •6•2•4•0•Updated Jul 14, 2025Jul 14, 2025

    • anospp-analysis

      Public
      Python package for ANOSPP data analysis
      Python
      •
      MIT License
      •1•0•1•0•Updated Jul 9, 2025Jul 9, 2025

    • parasite-data

      Public
      Documentation, discussion forum and issue tracker for malaria parasite genomic data released by MalariaGEN.
      0•0•4•0•Updated Jul 2, 2025Jul 2, 2025

    • pf-haploatlas

      Public
      HTML
      •
      MIT License
      •1•2•20•0•Updated Jul 1, 2025Jul 1, 2025

    • funestus_popgen_ms

      Public
      Code accompanying Af1.0 publication
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Jun 30, 2025Jun 30, 2025

    • vobs-updates

      Public
      Minisite with technical updates from the Malaria Vector Genome Observatory.
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •1•0•5•0•Updated May 22, 2025May 22, 2025

    • streamlit-plotly-events2

      Public
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Mar 21, 2025Mar 21, 2025

    • vector-data

      Public
      Documentation, discussion forum and issue tracker for malaria vector genomic data released by MalariaGEN.
      5•7•14•0•Updated Mar 19, 2025Mar 19, 2025

    • gsoc-mosquito-taxon-classifier

      Public
      Mosquito taxon classifier - GSoC
      8•11•15•1•Updated Mar 14, 2025Mar 14, 2025

    • agam-selection-atlas

      Public
      Ag1000G selection atlas
      Jupyter Notebook
      •
      MIT License
      •2•2•14•0•Updated Mar 12, 2025Mar 12, 2025

    • pipelines

      Public
      Pipelines for processing malaria parasite and mosquito genome sequence data.
      WDL
      •
      MIT License
      •15•14•0•6•Updated Nov 2, 2024Nov 2, 2024

    • GeneticReportCard

      Public
      Genetic Report Card code
      Java
      •
      MIT License
      •2•4•0•0•Updated Oct 8, 2024Oct 8, 2024

    • mali-analysis-paper

      Public
      HTML
      •
      Creative Commons Attribution 4.0 International
      •0•0•0•1•Updated Aug 19, 2024Aug 19, 2024

    • journal-club

      Public
      0•2•13•0•Updated Jan 15, 2024Jan 15, 2024

    • pv-muhap

      Public
      Supporting notebooks and data for the Pv microhaplotypes paper
      Jupyter Notebook
      •1•0•0•1•Updated Oct 24, 2023Oct 24, 2023

    • anopheles-genomic-surveillance.github.io

      Public
      Lecture notes for a course on genomic surveillance of malaria vectors, developed by PAMCA and MalariaGEN
      Creative Commons Attribution Share Alike 4.0 International
      •23•0•0•0•Updated Mar 6, 2023Mar 6, 2023

    • sims-backbone

      Public
      Python
      •1•1•1•163•Updated Jan 24, 2023Jan 24, 2023

    • datalab-guide

      Public
      User guide and documentation for the MalariaGEN DataLab service
      MIT License
      •3•0•2•0•Updated Dec 6, 2022Dec 6, 2022

    • Pf6plus

      Public
      A repository hosting Pf6+, an accessible resource with over 13,000 WGS and targeted-genotyped P. falciparum samples with information on drug-resistant phenotypes.
      Jupyter Notebook
      •0•0•0•0•Updated Sep 14, 2022Sep 14, 2022

    • malvecbib

      Public
      A bibtex bibliography for all things related to malaria vector biology and genomics.
      TeX
      •
      Creative Commons Zero v1.0 Universal
      •2•0•0•0•Updated Sep 23, 2021Sep 23, 2021

    • phenotyper

      Public
      R
      •0•0•0•0•Updated Sep 19, 2021Sep 19, 2021

    • ag1000g-phase3-data-paper

      Public
      HTML
      •
      Other
      •3•1•11•2•Updated May 21, 2021May 21, 2021

    • ag1000g-phase2-vgsc-report

      Public
      Analysis of the Vgsc gene as part of Ag1000G phase 2.
      Jupyter Notebook
      •
      MIT License
      •6•1•0•0•Updated May 19, 2021May 19, 2021

    • ano-spp

      Public
      A targeted amplicon sequencing panel to simultaneously identify mosquito species and Plasmodium presence across the entire Anopheles genus
      Jupyter Notebook
      •
      MIT License
      •0•3•0•0•Updated Feb 17, 2021Feb 17, 2021

    • intake

      Public
      Intake data catalogs for MalariaGEN.
      MIT License
      •3•0•1•0•Updated Jan 4, 2021Jan 4, 2021

    • ag1000g-phase1-vgsc-report

      Public
      Jupyter Notebook
      •
      MIT License
      •7•1•3•2•Updated Dec 23, 2020Dec 23, 2020

    • manubot-test

      Public
      HTML
      •
      Other
      •0•0•0•0•Updated Jun 23, 2020Jun 23, 2020