bart 🧬🛹🦠¶
bart (Bacterial Read Typer) is a lightweight bioinformatics tool for typing targeted genomic loci directly from raw sequencing reads (Illumina short reads or Oxford Nanopore long reads) without waiting for full de novo genome assembly.
Key Capabilities¶
- Assembly-Free Surveillance: Screens raw FASTQ streams against curated reference locus databases to rapidly infer antigen or resistance gene presence.
- Complementary to Kaptive: Designed to work alongside assembly-based tools like Kaptive 3 and alignment bindings like rammappy in high-throughput pathogen genomics workflows.