articleG3 Genes Genomes GeneticsFeb 18, 2020GOLD OA

BlobToolKit – Interactive Quality Assessment of Genome Assemblies

RCRichard ChallisEGE. G. RichardsJRJeena RajanGCGuy CochraneMBMark Blaxter

Wellcome Sanger Institute · University of Edinburgh · +1 more institution

PubMed
Indexed incrossrefdoajpubmed

Abstract

Reconstruction of target genomes from sequence data produced by instruments that are agnostic as to the species-of-origin may be confounded by contaminant DNA. Whether introduced during sample processing or through co-extraction alongside the target DNA, if insufficient care is taken during the assembly process, the final assembled genome may be a mixture of data from several species. Such assemblies can confound sequence-based biological inference and, when deposited in public databases, may be included in downstream analyses by users unaware of underlying problems. We present BlobToolKit, a software suite to aid researchers in identifying and isolating non-target data in draft and publicly available genome…

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Topics & keywords

Topics
Keywords
  • Genome
  • Computer science
  • Pipeline (software)
  • Sequence assembly
  • Process (computing)
  • Credibility
  • Quality (philosophy)
  • Suite
UN Sustainable Development Goals
  • Partnerships for the goals
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