CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metagenomes

📝 Sketch-based surveillance platform

Ultra-fast preprocessing and quality control for long-read sequencing data

Python script to characterize the Neisseria capsule and predict serogroup for Neisseria meningitidis

Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

Population analysis PIPEline 🛠🧬

Genome size estimation from long read overlaps

Toolkit for genome-wide analysis of tandem repeats

RSV-B lineage definitions and proposals

AMR/VF LGT focused bacterial genomics analysis workflow

FASTQ sequence quality visualisation with Emoji

Pre-conference workshop for ASM NGS 2024

A tool for typing SCCmec cassettes in assemblies

Split k-mer analysis – version 2

A Visual Analytics Tool for Pangenomic Variant Analysis

Tools for fast and flexible genome assembly scaffolding and improvement

Toolkit to convert the output of common variant calling programs to VCF

Standard database for the TBProfiler tool

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

Databases for wg/cgMLST analysis with the PN2.0 software

k-mers and the like

Synteny and Rearrangement Identifier

Oxford Nanopore Technologies (ONT) long-read assembly polishing tool

A novel method for sequence similarity estimation

Nextstrain build for avian influenza viruses

Podman: A tool for managing OCI containers and pods.

a tool to filter sites in a FASTA-format whole-genome pseudo-alignment