LongStitch: high-quality genome assembly correction and scaffolding using long reads.

ABSTRACT:

Background

Generating high-quality de novo genome assemblies is foundational to the genomics study of model and non-model organisms. In recent years, long-read sequencing has greatly benefited genome assembly and scaffolding, a process by which assembled sequences are ordered and oriented through the use of long-range information. Long reads are better able to span repetitive genomic regions compared to short reads, and thus have tremendous utility for resolving problematic regions and helping generate more complete draft assemblies. Here, we present LongStitch, a scalable pipeline that corrects and scaffolds draft genome assemblies exclusively using long reads.

Results

LongStitch incorporates multiple tools developed by our group and runs in up to three stages, which includ

SUBMITTER: Coombe L 

PROVIDER: S-EPMC8557608 | biostudies-literature | 2021 Oct

REPOSITORIES: biostudies-literature