BSR-Based Allele Calling Algorithm

GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/GrapeTree/MSTree_holder.html

Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.

Collection of scripts for bacterial genomics

Fast k-mer based tool for multi locus sequence typing (MLST)

all methods related to Enterobase

In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data

Ultrafast sequence typing and gene detection from NGS raw reads

An easy way of MLSTyping your genomes in R.

MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.

EcoliTyper: A species-optimized computational pipeline for comprehensive genotyping and surveillance of Escherichia coli. Perfect for clinical microbiology, outbreak investigations, and genomic research.

List and download schemes from pubMLST.org and other BIGSDB servers

cg/wgMLST allele calling software, schema evaluation and allele distance estimation for outbreak reserch.

In silico multi-locus sequence typing (MLST) for bacterial genomes

AcinetoScope A Unified Pipeline for Comprehensive Acinobacter baumannii & Species Complex Genotyping & Epidemiology

Rapid, in silico characterization of Bacillus cereus group isolates using WGS data

stringMLST datasets

bacterial read typer 🧬 🛹 🦠

A collection of bioinformatics tools for use with galaxy written at Quadram Institute

Ultra-fast SNP/indel-level distance calculator for core genome MLST analysis in bacterial genomics