Ghent University Academic Bibliography

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DECONbench : a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification

Clémentine Decamps, Alexis Arnaud, Florent Petitprez, Mira Ayadi, Aurélia Baurès, Lucile Armenoult, N. Alcala, A. Arnaud, Francisco Avila Cobos (UGent) , Luciana Batista, et al.

(2021) BMC BIOINFORMATICS. 22(1).
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BLAMM : BLAS-based algorithm for finding position weight matrix occurrences in DNA sequences on CPUs and GPUs

Jan Fostier (UGent)

(2020) BMC BIOINFORMATICS. 21.
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SPECS: a non-parametric method to identify tissue-specific molecular features for unbalanced sample groups

Celine Everaert (UGent) , Pieter-Jan Volders (UGent) , Annelien Morlion (UGent) , Olivier Thas (UGent) and Pieter Mestdagh (UGent)

(2020) BMC Bioinformatics. 21(1).
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High quality genome assemblies of Mycoplasma bovis using a taxon-specific Bonito basecaller for MinION and Flongle long-read nanopore sequencing

Nick Vereecke (UGent) , Jade Bokma (UGent) , Freddy Haesebrouck (UGent) , Hans Nauwynck (UGent) , Filip Boyen (UGent) , Bart Pardon (UGent) and Sebastiaan Theuns (UGent)

(2020) BMC BIOINFORMATICS. 21(1).
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Accurate determination of node and arc multiplicities in de bruijn graphs using conditional random fields

Aranka Steyaert (UGent) , P. Audenaert (UGent) and Jan Fostier (UGent)

(2020) BMC BIOINFORMATICS. 21(1).
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Optimising orbit counting of arbitrary order by equation selection

Ine Melckenbeeck, P. Audenaert (UGent) , Thomas Van Parys (UGent) , Yves Van de Peer (UGent) , Didier Colle (UGent) and Mario Pickavet (UGent)

(2019) BMC BIOINFORMATICS. 20.
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Illumina error correction near highly repetitive DNA regions improves de novo genome assembly

Mahdi Heydari, Giles Miclotte (UGent) , Yves Van de Peer (UGent) and Jan Fostier (UGent)

(2019) BMC BIOINFORMATICS. 20.
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BrownieAligner : accurate alignment of Illumina sequencing data to de Bruijn graphs

Mahdi Heydari, Giles Miclotte (UGent) , Yves Van de Peer (UGent) and Jan Fostier (UGent)

(2018) BMC BIOINFORMATICS. 19.
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Core Hunter 3 : flexible core subset selection

Herman De Beukelaer (UGent) , Guy F. Davenport and Veerle Fack (UGent)

(2018) BMC BIOINFORMATICS. 19.
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Evaluation of the impact of Illumina error correction tools on de novo genome assembly

Mahdi Heydari, Giles Miclotte (UGent) , Piet Demeester (UGent) , Yves Van de Peer (UGent) and Jan Fostier (UGent)

(2017) BMC BIOINFORMATICS. 18.

Academic Bibliography

DECONbench : a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification

BLAMM : BLAS-based algorithm for finding position weight matrix occurrences in DNA sequences on CPUs and GPUs

SPECS: a non-parametric method to identify tissue-specific molecular features for unbalanced sample groups

High quality genome assemblies of Mycoplasma bovis using a taxon-specific Bonito basecaller for MinION and Flongle long-read nanopore sequencing

Accurate determination of node and arc multiplicities in de bruijn graphs using conditional random fields

Optimising orbit counting of arbitrary order by equation selection

Illumina error correction near highly repetitive DNA regions improves de novo genome assembly

BrownieAligner : accurate alignment of Illumina sequencing data to de Bruijn graphs

Core Hunter 3 : flexible core subset selection

Evaluation of the impact of Illumina error correction tools on de novo genome assembly

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