Accurate genome assembly is hampered by repetitive regions. Although long single
molecule sequencing reads are better able to resolve genomic repeats than short-read data …

Current state-of-the-art de novo long read genome assemblers follow the Overlap-Layout-
Consensus paradigm. While read-to-read overlap–its most costly step–was improved in …

Third-generation sequencing technologies from companies such as Oxford Nanopore and
Pacific Biosciences have paved the way for building more contiguous and potentially gap …

Although most existing genome assemblers are based on de Bruijn graphs, the construction
of these graphs for large genomes and large k-mer sizes has remained elusive. This …

Motivation: Genome assemblies generated with next-generation sequencing (NGS) reads
usually contain a number of gaps. Several tools have recently been developed to close the …

Long-read sequencing technologies have the potential to produce gold-standard de novo
genome assemblies, but fully exploiting error-prone reads to resolve repeats remains a …

Background Genome sequencing yields the sequence of many short snippets of DNA
(reads) from a genome. Genome assembly attempts to reconstruct the original genome from …

Whole genome sequencing technologies are unable to invariably read DNA molecules
intact, a shortcoming that assemblers try to resolve by stitching the obtained fragments back …

Low-cost short read sequencing technology has revolutionized genomics, though it is only
just becoming practical for the high-quality de novo assembly of a novel large genome. We …

Long-read single-molecule sequencing has revolutionized de novo genome assembly and
enabled the automated reconstruction of reference-quality genomes. However, given the …