Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS

Sven Warris; Feyruz Yalcin; Katherine J.L.  Jackson; Jan Peter Nap

Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS

Sven Warris, Feyruz Yalcin, Katherine J.L. Jackson, Jan Peter Nap

Life Sciences & Renewable Energy

Onderzoeksoutput: Article › Academic › peer review

199 Downloads (Pure)

Samenvatting

To obtain large-scale sequence alignments in a fast and flexible way is an important step in the analyses of next generation sequencing data. Applications based on the Smith-Waterman (SW) algorithm are often either not fast enough, limited to dedicated tasks or not sufficiently accurate due to statistical issues. Current SW implementations that run on graphics hardware do not report the alignment details necessary for further analysis.

Originele taal-2	English
Aantal pagina's	13
Tijdschrift	PLOS ONE
Status	Published - 1 apr. 2015

Duurzame ontwikkelingsdoelstellingen van de VN

Deze output draagt bij aan de volgende duurzame ontwikkelingsdoelstelling(en)

SDG 07 – Betaalbare en schone energie
SDG 09 – Industrie, innovatie en infrastructuur

Keywords

bioinformatica

Research Focus Areas Hanze University of Applied Sciences

Energie

Research Focus Areas Research Centre or Centre of Expertise

Hernieuwbare brandstoffen en duurzame gassen

Publinova thema's

Techniek

Toegang tot document

flexiblefastandaccurateFinal published version, 1,44 MB

Citeer dit

@article{716de63309ef482785cf187b41ce46d2,

title = "Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS",

abstract = "To obtain large-scale sequence alignments in a fast and flexible way is an important step in the analyses of next generation sequencing data. Applications based on the Smith-Waterman (SW) algorithm are often either not fast enough, limited to dedicated tasks or not sufficiently accurate due to statistical issues. Current SW implementations that run on graphics hardware do not report the alignment details necessary for further analysis.",

keywords = "bioinformatics, bioinformatica",

author = "Sven Warris and Feyruz Yalcin and Jackson, \{Katherine J.L.\} and Nap, \{Jan Peter\}",

year = "2015",

month = apr,

day = "1",

language = "English",

journal = "PLOS ONE",

issn = "1932-6203",

publisher = "Public Library of Science",

}

TY - JOUR

T1 - Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS

AU - Warris, Sven

AU - Yalcin, Feyruz

AU - Jackson, Katherine J.L.

AU - Nap, Jan Peter

PY - 2015/4/1

Y1 - 2015/4/1

N2 - To obtain large-scale sequence alignments in a fast and flexible way is an important step in the analyses of next generation sequencing data. Applications based on the Smith-Waterman (SW) algorithm are often either not fast enough, limited to dedicated tasks or not sufficiently accurate due to statistical issues. Current SW implementations that run on graphics hardware do not report the alignment details necessary for further analysis.

AB - To obtain large-scale sequence alignments in a fast and flexible way is an important step in the analyses of next generation sequencing data. Applications based on the Smith-Waterman (SW) algorithm are often either not fast enough, limited to dedicated tasks or not sufficiently accurate due to statistical issues. Current SW implementations that run on graphics hardware do not report the alignment details necessary for further analysis.

KW - bioinformatics

KW - bioinformatica

M3 - Article

SN - 1932-6203

JO - PLOS ONE

JF - PLOS ONE

ER -

Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS

Samenvatting

Duurzame ontwikkelingsdoelstellingen van de VN

Keywords

Research Focus Areas Hanze University of Applied Sciences

Research Focus Areas Research Centre or Centre of Expertise

Publinova thema's

Toegang tot document

Vingerafdruk

Citeer dit