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mixinfect2

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gmboowa / mtb-mixed-infection-pipeline

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mtb-mixed-infection-pipeline enables detection of mixed Mycobacterium tuberculosis infections using a reproducible workflow that integrates Snippy, FreeBayes (pooled mode) & MixInfect2. It processes raw reads through alignment, variant calling & statistical analysis to identify mixed-strain infections

whole-genome-sequencing variant-analysis freebayes mixed-infection mycobacterium-tuberculosis snippy mixinfect2
  • Updated Jun 10, 2025
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