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@malariagen MalariaGEN

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    67 repositories

    • malariagen-data-python

      Public
      Analyse MalariaGEN data from Python
      Jupyter Notebook
      •
      MIT License
      •170•50•92•119•Updated Oct 1, 2026Oct 1, 2026

    • anjl

      Public
      A neighbour-joining library for Python.
      Jupyter Notebook
      •
      MIT License
      •1•1•6•0•Updated Sep 30, 2026Sep 30, 2026

    • 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 Sep 30, 2026Sep 30, 2026

    • vector-data

      Public
      Documentation, discussion forum and issue tracker for malaria vector genomic data released by MalariaGEN.
      5•7•17•2•Updated Sep 28, 2026Sep 28, 2026

    • numpydoc_decorator

      Public
      Build numpy-style docstrings programmatically and apply them using a decorator.
      Python
      •
      MIT License
      •1•16•2•1•Updated Sep 25, 2026Sep 25, 2026

    • mgenv

      Public
      Repository with installation scripts and environment definitions for conda and texlive, for standardising environments across the MalariaGEN resource centre tea…
      Shell
      •
      MIT License
      •6•2•5•2•Updated Sep 22, 2026Sep 22, 2026

    • pf-peptidefilter

      Public
      Python
      •0•0•0•0•Updated Sep 14, 2026Sep 14, 2026

    • pf-haploatlas

      Public
      HTML
      •
      MIT License
      •1•2•20•0•Updated Sep 9, 2026Sep 9, 2026

    • fastq-classifier

      Public
      A repo for Sadat to store code
      Python
      •0•1•0•0•Updated Sep 3, 2026Sep 3, 2026

    • kestrel

      Public
      Fast relatedness estimation with SQP
      Rust
      •
      Mozilla Public License 2.0
      •0•1•3•0•Updated Aug 24, 2026Aug 24, 2026

    • parasite-data

      Public
      Documentation, discussion forum and issue tracker for malaria parasite genomic data released by MalariaGEN.
      0•0•1•0•Updated Jul 1, 2026Jul 1, 2026

    • parasite-data-explorer

      Public
      Python
      •0•0•0•0•Updated Jun 9, 2026Jun 9, 2026

    • deep-gw-cnv

      Public
      Jupyter Notebook
      •0•1•0•0•Updated May 25, 2026May 25, 2026

    • epitopeprediction

      Public
      A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
      Nextflow
      •
      MIT License
      •34•0•0•0•Updated Apr 24, 2026Apr 24, 2026

    • igv-streamlit

      Public
      An unofficial Streamlit component for embedding the igv.js genome browser
      Python
      •
      MIT License
      •1•1•0•0•Updated Mar 10, 2026Mar 10, 2026

    • AmpRecon

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Feb 20, 2026Feb 20, 2026

    • AmpReconResources

      Public
      0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • vector_gwas_exploration

      Public
      Jupyter Notebook
      •0•0•0•2•Updated Sep 25, 2025Sep 25, 2025

    • vector-taxon-classifier-prediction

      Public
      Mosquito Species Prediction Library
      classifierrandom-foresttaxonomic-classification
      classifierrandom-foresttaxonomic-classificationmalariagen
      Python
      •1•2•0•0•Updated Sep 12, 2025Sep 12, 2025

    • malariagen-pf8-cnv-calling

      Public
      For making Pf8's copy number variation (CNV) calls.
      Jupyter Notebook
      •
      MIT License
      •1•2•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
      •1•1•0•0•Updated Aug 15, 2025Aug 15, 2025

    • funestus_popgen_ms

      Public
      Code accompanying Af1.0 publication
      Jupyter Notebook
      •
      MIT License
      •1•2•0•0•Updated Jun 30, 2025Jun 30, 2025

    • streamlit-plotly-events2

      Public
      Python
      •
      Apache License 2.0
      •0•2•0•0•Updated Mar 21, 2025Mar 21, 2025

    • gsoc-mosquito-taxon-classifier

      Public
      Mosquito taxon classifier - GSoC
      11•11•17•2•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•15•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
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