🔎 💊 Mass screening of contigs for antimicrobial and virulence genes
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Dec 31, 2023 - Perl
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virulence-genes
Here are 9 public repositories matching this topic...
Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
pipeline annotation nextflow reproducible-research virulence-factor genome-browser genome-analysis rgi virulence-genes mobile-genetic-elements barrnap prophages antimicrobial-genes-annotation methylation-annotation ko-annotation insertion-sequences genomic-islands-prediction prophage-sequences-prediction phigaro rrna-prediction
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Nov 26, 2025 - Nextflow
StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
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Dec 1, 2025 - C++
JAMIRA is a reproducible Workflow for Integrative Exploration of Genomic Features of prokariotes
snakemake comparative-genomics genomic-data-analysis genomic-islands resistome virulence-genes bioinformatics-workflow prophages
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Nov 10, 2020 - Python
Pure Python port and interface to ABRicate, a tool for mass screening of contigs for antimicrobial resistance or virulence genes.
python-library antibiotic-resistance bioinformatics-tool antimicrobial-resistance-genes virulence-genes bioinformatics-library
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Nov 4, 2025 - Python
Source data files and sequence databases used in the paper
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Sep 16, 2023 - R
This repository contains scripts used to collect and analyze data from whole genome sequences of clinical Streptococcus agalactiae (Group B Strep) isolates for the project described in the following manuscript: Pell, M.E. et al., bioRxiv, 2024-04-01.
variant-calling whole-genome-sequencing antibiotic-resistance virulence-genes streptococcus-agalactiae bacterial-genomics pangenome-analysis
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Jul 24, 2025 - R
Plasmidome analysis to track the transfer route of AMR genes in bacteria
fasta-sequences rgi antimicrobial-resistance-genes prokka plasmidfinder abricate virulence-genes antimicrobial-genes-annotation amr-detection refseq-genbank panaroo
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Oct 15, 2023 - Jupyter Notebook
An examination of genomic resistance and virulence of Escherichia marmotae dentified in deer faeces Portumna, Galway.
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Jul 18, 2022 - Shell
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