Benjamin P. Vandervalk

24 papers C 1Journal 14Unranked 9

Year	Rank	Type	Title / Venue / Authors
2018	J	`jnl`	ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers. BMC Bioinform. Lauren Coombe, Jessica Zhang, Benjamin P. Vandervalk, Justin Chu, Shaun D. Jackman, Inanç Birol, René L. Warren
2018	J	`jnl`	ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data. Bioinform. Hamza Khan, Hamid Mohamadi, Benjamin P. Vandervalk, René L. Warren, Justin Chu, Inanç Birol
2018	J	`jnl`	Tigmint: correcting assembly errors using linked reads from large molecules. BMC Bioinform. Shaun D. Jackman, Lauren Coombe, Justin Chu, René L. Warren, Benjamin P. Vandervalk, Sarah Yeo, Zhuyi Xue, Hamid Mohamadi, Jörg Bohlmann, Steven J. M. Jones, Inanç Birol
2017	J	`jnl`	Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. Erdi Kucuk, Justin Chu, Benjamin P. Vandervalk, S. Austin Hammond, René L. Warren, Inanç Birol
2017	J	`jnl`	Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. Erdi Kucuk, Justin Chu, Benjamin P. Vandervalk, S. Austin Hammond, René L. Warren, Inanç Birol
2016	J	`jnl`	ntHash: recursive nucleotide hashing. Bioinform. Hamid Mohamadi, Justin Chu, Benjamin P. Vandervalk, Inanç Birol
2015	J	`jnl`	Sealer: a scalable gap-closing application for finishing draft genomes. BMC Bioinform. Daniel Paulino, René L. Warren, Benjamin P. Vandervalk, Anthony Raymond, Shaun D. Jackman, Inanç Birol
2014	—	`conf`	Konnector: Connecting paired-end reads using a bloom filter de Bruijn graph. BIBM Benjamin P. Vandervalk, Shaun D. Jackman, Anthony Raymond, Hamid Mohamadi, Chen Yang, Dean A. Attali, Justin Chu, René L. Warren, Inanç Birol
2014	—	`conf`	Spaced seed data structures. BIBM Inanç Birol, Hamid Mohamadi, Anthony Raymond, Karthika Raghavan, Justin Chu, Benjamin P. Vandervalk, Shaun D. Jackman, René L. Warren
2013	J	`jnl`	Assembling the 20 Gb white spruce ( Bioinform. Inanç Birol, Anthony Raymond, Shaun D. Jackman, Stephen Pleasance, Robin Coope, Greg A. Taylor, Macaire Man Saint Yuen, Christopher I. Keeling, Dana Brand, Benjamin P. Vandervalk, Heather Kirk, Pawan Pandoh, Richard A. Moore, Yongjun Zhao, Andrew J. Mungall, Barry Jaquish, Alvin Yanchuk, Carol Ritland, Brian Boyle, Jean Bousquet, Kermit Ritland, John Mackay, Jörg Bohlmann, Steven J. M. Jones
2013	J	`jnl`	SHARE: A Web Service Based Framework for Distributed Querying and Reasoning on the Semantic Web CoRR Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson
2012	—	`conf`	OWL-DL Domain-Models as Abstract Workflows. ISoLA (2) Ian Wood, Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson
2012	J	`jnl`	SPARQL Assist language-neutral query composer. BMC Bioinform. E. Luke McCarthy, Benjamin P. Vandervalk, Mark D. Wilkinson
2011	—	`conf`	SADI for GMOD: Semantic Web Services for Model Organism Databases. CSWS Benjamin P. Vandervalk, Michel Dumontier, E. Luke McCarthy, Mark D. Wilkinson
2011	J	`jnl`	The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation. J. Biomed. Semant. Mark D. Wilkinson, Benjamin P. Vandervalk, E. Luke McCarthy
2010	J	`jnl`	SADI, SHARE, and the in silico scientific method. BMC Bioinform. Mark D. Wilkinson, E. Luke McCarthy, Benjamin P. Vandervalk, David Withers, Edward A. Kawas, Soroush Samadian
2010	—	`conf`	SHARE & The Semantic Web - This Time it's Personal! OWLED Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson
2010	J	`jnl`	SPARQL Assist Language-Neutral Query Composer CoRR E. Luke McCarthy, Benjamin P. Vandervalk, Mark D. Wilkinson
2010	—	`conf`	SPARQL Assist Language-Neutral Query Composer. SWAT4LS E. Luke McCarthy, Benjamin P. Vandervalk, Mark D. Wilkinson
2010	—	`conf`	Semantically-Guided Workflow Construction in Taverna: The SADI and BioMoby Plug-Ins. ISoLA (1) David Withers, Edward A. Kawas, E. Luke McCarthy, Benjamin P. Vandervalk, Mark D. Wilkinson
2009	J	`jnl`	Moby and Moby 2: Creatures of the Deep (Web). Briefings Bioinform. Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson
2009	—	`conf`	Optimization of Distributed SPARQL Queries Using Edmonds' Algorithm and Prim's Algorithm. CSE (1) Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson
2009	C	`conf`	SADI Semantic Web Services - 'cause you can't always GET what you want!. APSCC Mark D. Wilkinson, Benjamin P. Vandervalk, E. Luke McCarthy
2009	—	`conf`	SHARE: A Semantic Web Query Engine for Bioinformatics. ASWC Benjamin P. Vandervalk, E. Luke McCarthy, Mark D. Wilkinson