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  1. ai-assisted-staphylococcus-invasome-mining-pipeline ai-assisted-staphylococcus-invasome-mining-pipeline Public

    AI-assisted pipeline for mining candidate Staphylococcus invasome and virulence-associated genes from assembled genome FASTA files.

    Python

  2. comparative-bacterial-genomics-pipeline comparative-bacterial-genomics-pipeline Public

    Reusable comparative bacterial genomics pipeline for assembled bacterial genome FASTA files using QUAST, Bakta, FastANI, Panaroo, and FastTree.

    Python 1

  3. ai-assisted-bacterial-genome-mining-pipeline ai-assisted-bacterial-genome-mining-pipeline Public

    Reusable bacterial genome mining pipeline for assembled genome FASTA files using QUAST, Bakta, antiSMASH, GECCO, and combined BGC summary reporting.

    Shell

  4. bacterial-genome-analysis-pipeline bacterial-genome-analysis-pipeline Public

    Reusable bacterial genome analysis pipeline for paired-end FASTQ data using FastQC, fastp, SPAdes, QUAST, Prokka, and MultiQC.

    Shell