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Pregled bibliografske jedinice broj: 874273

Fast and accurate de novo genome assembly from long uncorrected reads


Vaser, Robert; Sović, Ivan; Nagaranjan, Niranjan; Šikić, Mile
Fast and accurate de novo genome assembly from long uncorrected reads // Genome research, 27 (2017), 737-746 doi:10.1101/gr.214270.116 (međunarodna recenzija, članak, znanstveni)


CROSBI ID: 874273 Za ispravke kontaktirajte CROSBI podršku putem web obrasca

Naslov
Fast and accurate de novo genome assembly from long uncorrected reads

Autori
Vaser, Robert ; Sović, Ivan ; Nagaranjan, Niranjan ; Šikić, Mile

Izvornik
Genome research (1088-9051) 27 (2017); 737-746

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
genome assembly, long reads, consensus

Sažetak
The assembly of long reads from Pacific Biosciences and Oxford Nanopore Technologies typically requires resource intensive error correction and consensus generation steps to obtain high quality assemblies. We show that the error correction step can be omitted and high quality consensus sequences can be generated efficiently with a SIMD accelerated, partial order alignment based stand-alone consensus module called Racon. Based on tests with PacBio and Oxford Nanopore datasets we show that Racon coupled with Miniasm enables consensus genomes with similar or better quality than state-of-the- art methods while being an order of magnitude faster.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Računarstvo



POVEZANOST RADA


Projekt / tema
HRZZ-UIP-2013-11-7353 - Algoritmi za analizu slijeda genoma (Mile Šikić, )

Ustanove
Fakultet elektrotehnike i računarstva, Zagreb,
Institut "Ruđer Bošković", Zagreb

Profili:

Avatar Url Mile Šikić (autor)

Avatar Url Ivan Sović (autor)

Avatar Url Robert Vaser (autor)

Citiraj ovu publikaciju

Vaser, Robert; Sović, Ivan; Nagaranjan, Niranjan; Šikić, Mile
Fast and accurate de novo genome assembly from long uncorrected reads // Genome research, 27 (2017), 737-746 doi:10.1101/gr.214270.116 (međunarodna recenzija, članak, znanstveni)
Vaser, R., Sović, I., Nagaranjan, N. & Šikić, M. (2017) Fast and accurate de novo genome assembly from long uncorrected reads. Genome research, 27, 737-746 doi:10.1101/gr.214270.116.
@article{article, year = {2017}, pages = {737-746}, DOI = {10.1101/gr.214270.116}, keywords = {genome assembly, long reads, consensus}, journal = {Genome research}, doi = {10.1101/gr.214270.116}, volume = {27}, issn = {1088-9051}, title = {Fast and accurate de novo genome assembly from long uncorrected reads}, keyword = {genome assembly, long reads, consensus} }

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


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