karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

Testing WGD placement along a species tree using gene trees.

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes

Visualization and analysis software for Hi-C data -

Recovering genes from targeted sequence capture data

A (very) simple script to QC Hi-C data.

Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

The complete sequence of a human genome