“YaHS: yet another Hi-C scaffolding tool” (2022), by Chenxi Zhou et al. Genetics and Biochemistry research paper. Original abstract below, unchanged. A free PDF is available.

YaHS: yet another Hi-C scaffolding tool

Chenxi Zhou, Shane McCarthy, Richard M. Durbin · December 16, 2022 · Genetics and Biochemistry

Abstract

SUMMARY: We present YaHS, a user-friendly command-line tool for the construction of chromosome-scale scaffolds from Hi-C data. It can be run with a single-line command, requires minimal input from users (an assembly file and an alignment file) which is compatible with similar tools and provides assembly results in multiple formats, thereby enabling rapid, robust and scalable construction of high-quality genome assemblies with high accuracy and contiguity. AVAILABILITY AND IMPLEMENTATION: YaHS is implemented in C and licensed under the MIT License. The source code, documentation and tutorial are available at https://github.com/sanger-tol/yahs. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Free PDF DOI: 10.1093/bioinformatics/btac808