Tool for globally phasing diploid assembly graphs with orthogonal data

Detecting multi-genome synteny using minimizer graph mapping

Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspring data"

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

kmerSV: a visualization and annotation tool for structural variants (SVs)

Toolkit for evolutionary analyses of linkage groups

A fast and effective high-order diploid human 3D genome construction method

An effective alignment tool for long noisy 3C data (e.g. Pore-C and C-walk)

Hybrid error correction of long reads using colored de Bruijn graphs

De novo chromosome-level scaffolding and phasing tool using Hi-C

oxford dot plots

Oxford Nanopore's Basecaller

A fast whole-genome aligner based on de Bruijn graphs

Useful bash one-liners for bioinformatics.

R package to draw syntenic plots in 3 different styles

🧬 gget enables efficient querying of genomic reference databases

Genome alignment and synteny plots

plotting in the terminal

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

Tool to plot synteny and structural rearrangements between genomes

Tools for haplotype-wise reconstruction of pseudomolecules

Palettes for R based on the Scientific Colour-Maps