Stars
a quality control tool for bacterial ONT-only assemblies
An extensible and performant aligner and read mapper
A markup-based typesetting system that is powerful and easy to learn.
A tool to detect acquired AMR genes directly from long read sequencing data.
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Electronic Valve Instrument – MIDI controller based on the Teensy 3.2
Visualization tool for (meta)genome assembly graphs
A data specification for harmonizing microbial typing contextual data. The specification provides standardized (ontology-based) fields and terms which can be implemented in tooling, with supporting…
De novo genome assembly for long reads using an overlap graph
Rapid & standardized genome annotation using protein structural information
This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.
C++ Audio Plug-in Framework for desktop, mobile, xr and web
PBSIM3: a simulator for all types of PacBio and ONT long reads
Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
MrBiomics: Composable modules and recipes automate bioinformatics for multi-omics analyses
Extremely fast and accurate Nanopore demultiplexing
A cross-platform, efficient and practical CSV/TSV toolkit in Golang
A tool for extending linear bacterial (primarily actinomycete) replicons to capture the telomere
A rapid, accurate and flexible (core-genome) multi-locus sequence typing (MLST) allele caller.
Identification and classification of homopolymeric tracts from reads.
Taxonomic Classification of Bacteria and Archaea Genomes
MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.
Download alleles and profiles from PubMLST and BIGSdb Pasteur
🛠️🧬 A Software Framework to Manipulate Assembly Graphs