AcinetoScope: A species-specific computational pipeline for rapid, comprehensive Acinetobacter baumannii outbreak investigation and resistance gene tracking
A species‑specific bioinformatics suite for rapid and accessible Pseudomonas aeruginosa genomic analysis
Fast microbial species identification (16S rRNA gene-based approach) and contamination check using whole genome assemblies
Toxinotype assignment of Clostridium perfringens via ABRicate
Plasmidome analysis to track the transfer route of AMR genes in bacteria
This script is used to convert the output of ABRICATE tabulated output into a matrix samples with the genes as columns and the presence/absence of the gene as the values.
End-to-end Pseudomonas carnis WGS pipeline for genome assembly, QC, read mapping, AMR, plasmid & virulence profiling.
🦇🧫📊Study on bat gut shotgun metagenomics
A modular, reproducible, and automated Bash pipeline for bacterial isolate whole-genome sequencing analysis from Illumina paired-end reads, including quality control, taxonomic classification, genome assembly, genome characterization, and coverage estimation.
Python-based genomic pipeline for carbapenemase gene detection and prevalence analysis from ABRicate outputs of clinical Klebsiella pneumoniae isolates.
AI-assisted pipeline for mining candidate Staphylococcus invasome and virulence-associated genes from assembled genome FASTA files.
An automated bioinformatics pipeline for bacterial pangenome analysis: from NCBI data acquisition to core-genome construction and visualization.
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