XRead: a coverage-guided approach for scalable construction of read overlapping graph.

ABSTRACT:

Background

The development of long-read sequencing is promising for the high-quality and comprehensive de novo assembly for various species around the world. However, it is still challenging for assemblers to handle thousands of genomes, tens of gigabase-level assembly sizes, and terabase-level datasets efficiently, which is a bottleneck to large-scale de novo sequencing studies. A major cause is the read overlapping graph construction that state-of-the-art tools usually have to cost terabyte-level RAM space and tens of days for large genomes. Such lower performance and scalability are not suited to handle the numerous samples being sequenced.

Findings

Herein, we propose xRead, a novel iterative overlapping graph construction approach that achieves high performance, scalabil

SUBMITTER: Kong T 

PROVIDER: S-EPMC11831799 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature