PyMSQ: a Python package for fast Mendelian sampling (co)variance and haplotype-based similarity in genomic selection

By facilitating the practical use of MSV, MSC, and a haplotype-based similarity metric, PyMSQ enables breeders and quantitative geneticists to adopt haplotype diversity constraints, whether as a standalone criterion or in synergy with optimal contribution selection. This framework opens new possibilities for preserving key haplotypic segments, ultimately supporting more sustainable genomic selection strategies. PyMSQ is freely available under an MIT License at https://github.com/aromemusa/PyMSQ .