Bacterial Typing

Universal Bacterial Typing

Advanced k-mer profiling and hierarchical clustering for precise bacterial identification and typing

⚠️ Web page under development ⚠️

Powerful Features

Classify

Rapidly classify bacterial sequences using BacTaxID algorithm

Browser

Explore comprehensive allthebacteria.org typing database with interactive visualization tools —

Code

Access our open-source implementation and integrate BacTaxID into your pipelines

Downloads

Get the latest version, reference databases, and comprehensive documentation

Classify Sequences

Real-time Classification

Submit your bacterial sequences and receive instant taxonomic classification with confidence scores.

  • Support for multiple input formats (FASTA, FASTA.GZ)
  • Hierarchical typing assignment
  • Detailed results information
  • ANI scores and best hit

Explore the Database

Interactive Browser

Navigate through 67 genus of All the Bacteria database with our intuitive web-based browser interface.

  • Krona Plot of hierarchical typing
  • AMRFinderPlus Integration
  • Sylph Species Integration
  • Links to BioSample and BioProject

Code

RUST source code

BacTaxID source code is available on GitHub for transparency and collaboration.

  • Multi-Threading support
  • DuckDB integration
  • NtHash hashing
  • BinWise Minhash sketching
  • Clique-base clustering algorithm

Download All the Bacteria databases

Get Everything You Need

Download the latest version of All The Bacteria genus databases.

  • Lastest All The Bacteria Typing databases
  • DuckDB single files.
  • Full code hierarchical typing
  • Sample sketches include
  • Ready to use with Update, Classify and Distance commands