Vaccination is historically one of the most important medical interventions for the prevention
of infectious disease. Previously, vaccines were typically made of rather crude mixtures of …

The ordering and orientation of genomic scaffolds to reconstruct chromosomes is an
essential step during de novo genome assembly. Because this process utilizes various …

Current sequencing methods produce large amounts of data, but genome assemblies based
on these data are often woefully incomplete. These incomplete and error-filled assemblies …

High-throughput DNA sequencing technologies are fuelling an accelerating trend to
assemble de novo or resequence the genomes of numerous species as well as to complete …

De novo RNA-Seq assembly facilitates the study of transcriptomes for species without
sequenced genomes, but it is challenging to select the most accurate assembly in this …

Ability to generate large RNA-Seq datasets created a demand for both de novo and
reference-based transcriptome assemblers. However, while many transcriptome assemblers …

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 …

Novel sequencing technologies are rapidly expanding the size of data sets that can be
applied to phylogenetic studies. Currently the most commonly used phylogenomic …

Over 95% of all metazoan (animal) species comprise the “invertebrates,” but very few
genomes from these organisms have been sequenced. We have, therefore, formed a …

Background The continued democratization of DNA sequencing has sparked a new wave of
development of genome assembly and assembly validation methods. As individual research …