SISTR (Salmonella In Silico Typing Resource) command-line tool
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Apr 24, 2025 - Python
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serotyping
Here are 8 public repositories matching this topic...
UPHL's Reference Free Pipeline
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Oct 30, 2025 - Nextflow
In silico serotype prediction for Listeria monocytogenes
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Feb 26, 2023 - Python
EcoliTyper: A species-optimized computational pipeline for comprehensive genotyping and surveillance of Escherichia coli. Perfect for clinical microbiology, outbreak investigations, and genomic research.
bioinformatics computational-biology public-health epidemiology microbial-genomics mlst ecoli escherichia-coli cge serotyping genotyping outbreak-investigation pathogen-surveillance strain-typing clermont-typing
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Dec 2, 2025 - C
IRIDA plugin for ECTyper (E.coli in silico typing tool)
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May 21, 2025 - Java
Pathogen whole genome sequence (WGS) data analysis pipeline
nanopore pathogen taxonomy assembly ngs amr mlst illumina plasmid serotyping virulome emm-typing capsular-typing
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Nov 13, 2025 - Nextflow
🧬 Analyze *Escherichia coli* strains efficiently with EcoliTyper, a unified tool for MLST, serotyping, and Clermont phylotyping in one workflow.
bioinformatics computational-biology public-health epidemiology microbial-genomics mlst ecoli escherichia-coli cge serotyping genotyping outbreak-investigation pathogen-surveillance strain-typing clermont-typing
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Dec 10, 2025 - Perl
IRIDA Plugin for SISTR Salmonella Typing Tool
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Mar 26, 2025 - Java
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