Several new genomics technologies have become available that offer long-read sequencing
or long-range mapping with higher throughput and higher resolution analysis than ever …

Aligning sequencing reads onto a reference is an essential step of the majority of genomic
analysis pipelines. Computational algorithms for read alignment have evolved in …

Abstract Approximately 5–10% of the human genome remains inaccessible due to the
presence of repetitive sequences such as segmental duplications and tandem repeat arrays …

Motivation Recent advances in sequencing technologies promise ultra-long reads of∼ 100
kb in average, full-length mRNA or cDNA reads in high throughput and genomic contigs …

It has been over a decade since the first publication of a method dedicated entirely to
mapping long-reads. The distinctive characteristics of long reads resulted in methods …

Next-generation sequencing approaches have fundamentally changed the types of
questions that can be asked about gene function and regulation. With the goal of …

Background Personal genomics and comparative genomics are becoming more important in
clinical practice and genome research. Both fields require sequence alignment to discover …

Abstract About 5-10% of the human genome remains inaccessible for functional analysis
due to the presence of repetitive sequences such as segmental duplications and tandem …

Background With the rapid increase in genome sequencing projects for non-model
organisms, numerous genome assemblies are currently in progress or available as drafts …

Sequence alignment is a fundamental task in bioinformatics, because many downstream
applications rely on it. The recent emergence of the third-generation sequencing technology …