A monitor of resources

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

tools for working with genome variation graphs

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

Oxford Nanopore's Basecaller

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

A fast multi-threaded k-mer counter

Haplotype VCF comparison tools

Genome browser and variant annotation

adapter trimmer for Oxford Nanopore reads

Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs

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

Pangenome-based genome inference

BWA-MEME: Faster BWA-MEM2 using learned-index

Mumemto: multi-MUM and MEM finding across pangenomes

A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulation.

PECAT, a phased error correct and assembly tool

reference-guided aligner for next-generation sequencing technologies

A simplified version of Dorado built on top of S/BLOW5 format.

Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat

A deletion and duplication caller from NGS paired-end data.