publication . Article . 2017

Assembling draft genomes using contiBAIT

O'Neill, Kieran; Hills, Mark; Gottlieb, Mike; Borkowski, Matthew; Karsan, Aly; Lansdorp, Peter M.;
Open Access
  • Published: 05 May 2017 Journal: Bioinformatics, volume 33, pages 2,737-2,739 (issn: 1367-4803, eissn: 1460-2059, Copyright policy)
  • Publisher: Oxford University Press (OUP)
Abstract
Abstract Summary: Massively parallel sequencing is now widely used, but data interpretation is only as good as the reference assembly to which it is aligned. While the number of reference assemblies has rapidly expanded, most of these remain at intermediate stages of completion, either as scaffold builds, or as chromosome builds (consisting of correctly ordered, but not necessarily correctly oriented scaffolds separated by gaps). Completion of de novo assemblies remains difficult, as regions that are repetitive or hard to sequence prevent the accumulation of larger scaffolds, and create errors such as misorientations and mislocalizations. Thus, complementary met...
Subjects
free text keywords: Software, business.industry, business, Massive parallel sequencing, Bioconductor, Coding strand, Genome, Data mining, computer.software_genre, computer, Computer science, Scaffold, Data interpretation, Bioinformatics, Genomics, Applications Notes, Genome Analysis, Journal Article
Funded by
CIHR
Project
  • Funder: Canadian Institutes of Health Research (CIHR)
,
NIH| Chromatin maintenance and sister chromatid differentiation
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5R01GM094146-03
  • Funding stream: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

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publication . Article . 2017

Assembling draft genomes using contiBAIT

O'Neill, Kieran; Hills, Mark; Gottlieb, Mike; Borkowski, Matthew; Karsan, Aly; Lansdorp, Peter M.;