🔎 💊 Mass screening of contigs for antimicrobial and virulence genes
-
Updated
Jul 17, 2026 - Perl
#
virulence-genes
Here are 10 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
-
Updated
Jan 22, 2026 - Nextflow
StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
-
Updated
Aug 28, 2026 - 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
-
Updated
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
-
Updated
Aug 2, 2026 - Python
Source data files and sequence databases used in the paper
-
Updated
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 Pell et al., mBio, 2026.
variant-calling whole-genome-sequencing antibiotic-resistance virulence-genes streptococcus-agalactiae bacterial-genomics pangenome-analysis
-
Updated
Jan 29, 2026 - 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
-
Updated
Oct 15, 2023 - Jupyter Notebook
Free, open-source AMR & virulence gene detection from FASTQ reads — entirely in your browser (KMA + fastp compiled to WebAssembly). No install, no upload.
bioinformatics browser genomics pathogen webassembly amr fastq cabbage kma antimicrobial-resistance virulence-genes vfdb resfinder
-
Updated
Oct 17, 2026 - JavaScript
An examination of genomic resistance and virulence of Escherichia marmotae dentified in deer faeces Portumna, Galway.
-
Updated
Jul 18, 2022 - Shell
Add this topic to your repo
To associate your repository with the virulence-genes topic, visit your repo's landing page and select "manage topics."