Assemblies from HPP Year 1 production

Deep learning-based gene annotation tool

convert paf to delta format

Ultralytics YOLO11 🚀

Fully automatic k-mer based polishing for genome assemblies. Based on original concept and design from Ivan Sovic, Ann McCartney, and Arang Rhie

Phased assembly variant caller

Scripts used for polishing T2T assembly

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

GFA visualizer, GPU-accelerated using Vulkan

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

PBSIM3: a simulator for all types of PacBio and ONT long reads

Yet another k-mer analyzer

A fast approximate aligner for long DNA sequences

A complete diploid human genome

BamDeal: a comprehensive toolkit for bam manipulation

Plotting scripts for long read sequencing data

Misassembly Identifier

The complete sequence of a Chinese individual

Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.

crab go snap snap

Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)

Workflow to identify the centromere dip regions (CDR) from methyl BAMs