Tools for haplotype-wise reconstruction of pseudomolecules
The aim of the tool is improving continuity of a given genome draft assembly up to pseudomolecule representation using a closely relate species as guide to sort and direct the query sequences.
HaploSync was developed to improve the quality of diploid genome assemblies. This tool:
- Builds diploid pseudomolecule assemblies from draft sequences using:
- a genetic map
- a chromosome scaled guide genome of a closely related species
- Compares alternative haplotypes to identify and correct misassemblies independently from any reference
- Fills assembly gaps with un-placed sequences
- Resolves collapsed homozygous regions
Andrea Minio, Noé Cochetel, Amanda M Vondras, Mélanie Massonnet, Dario Cantu
G3 Genes|Genomes|Genetics, Volume 12, Issue 8, August 2022, jkac143, https://doi.org/10.1093/g3journal/jkac143