LDscaff: LD-based scaffolding of de novo genome assemblies.

ABSTRACT:

Background

Genome assembly is fundamental for de novo genome analysis. Hybrid assembly, utilizing various sequencing technologies increases both contiguity and accuracy. While such approaches require extra costly sequencing efforts, the information provided millions of existed whole-genome sequencing data have not been fully utilized to resolve the task of scaffolding. Genetic recombination patterns in population data indicate non-random association among alleles at different loci, can provide physical distance signals to guide scaffolding.

Results

In this paper, we propose LDscaff for draft genome assembly incorporating linkage disequilibrium information in population data. We evaluated the performance of our method with both simulated data and real data. We simulated scaff

SUBMITTER: Zhao Z 

PROVIDER: S-EPMC7768660 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature