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Qasim-Hussain-Code / moshpit_cocoa_fermentation_analysis

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A reproducible, shotgun metagenomics pipeline (MEGAHIT, MetaBAT 2, Sourmash, Kraken 2) characterizing the microbial ecology, taxonomic abundance, and genomic bins of cocoa fermentation.

metagenomics microbiome microbial-ecology qiime2 saccharomyces-cerevisiae metabolic-profiling moshpit lactobacillaceae lactic-acid-bacteria microbial-succession food-microbiology fermentation-ecology theobroma-cacao cocoa-fermentation acetic-acid-bacteria acetobacteraceae mag-recovery
  • Updated Jun 4, 2026
  • Python

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