Denis Yuen

Most-cited papers

PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification
Jing Zhang, L. Xin, B. Shan, Weiwu Chen +6 more
2011Molecular & Cellular Proteomics1,001 citations Open access
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Applying the FAIR Principles to computational workflows
Sean R. Wilkinson, Meznah Aloqalaa, K. Belhajjame, M. Crusoe +19 more
2024Scientific Data91 citations Open access
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The Dockstore: enabling modular, community-focused sharing of Docker-based genomics tools and workflows
Brian D. O'Connor, Denis Yuen, Vincent Chung, Andrew G. Duncan +5 more
2017F1000Research87 citations Open access
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Automated protein (re)sequencing with MS/MS and a homologous database yields almost full coverage and accuracy
Xiaowen Liu, Yonghua Han, Denis Yuen, B. Ma
2009Bioinform.40 citations
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The Dockstore: enhancing a community platform for sharing reproducible and accessible computational protocols
Denis Yuen, Louise Cabansay, Andrew Duncan, Gary Luu +15 more
2021Nucleic Acids Res.38 citations Open access
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Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments
Christina K. Yung, Brian O’Connor, Sergei Yakneen, Junjun Zhang +109 more
2017bioRxiv25 citations Open access
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Segment Choice Models: Feature-Rich Models for Global Distortion in Statistical Machine Translation
R. Kuhn, Denis Yuen, Michel Simard, Patrick Paul +3 more
2006North American Chapter of the Association for Computational Linguistics12 citations
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common-workflow-language/cwltool
P. Amstutz, M. Crusoe, Manvendra Singh, Kapil Kumar +26 more
20174 citations
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The GA4GH Tool Registry Service (TRS) Dockstore – year one
Denis Yuen, Brian D. O'Connor, Andrew Duncan, Gary Luu +8 more
20191 citations Open access
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Dockstore fundamentals: Introduction to docker and descriptors for reproducible analysis
Louise Cabansay, Andrew Duncan, Denis Yuen
20200 citations Open access
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seqware-bag: 1.0.1
Denis Yuen, S. Watt, S. Shorser, Adam
20160 citations
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Icgc-Tcga-Pancancer/Cgp-Somatic-Docker: 2.0.3
K. Raine, Brian D. O'Connor, Adam Struck, S. Shorser +4 more
20160 citations
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seqware-bag: 1.0.1-test
Denis Yuen, S. Watt, S. Shorser, Adam
20160 citations
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seqware-bag: 1.0.3
Denis Yuen, S. Watt, S. Shorser, Adam
20160 citations
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seqware-bag: 1.0.2-test
Denis Yuen, S. Watt, S. Shorser, Adam
20160 citations
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seqware: 1.1.0-rc.1
Denis Yuen, R. Suri, Brian D. O'Connor, Maksym Max Pikhteryev +11 more
20150 citations
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pancancer-bag: 1.0.0
Denis Yuen, Brian D. O'Connor, S. Shorser, niall-byrne +2 more
20150 citations
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pancancer-bag: 1.0-beta.2
Denis Yuen, Brian D. O'Connor, niall-byrne, Adam +1 more
20150 citations
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seqware-bag: 1.0-beta.1
Denis Yuen, S. Watt, Adam
20150 citations
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seqware-bag: 1.0-beta.0
Denis Yuen, S. Watt, Adam
20150 citations
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seqware-bag: 1
Denis Yuen, S. Watt, S. Shorser, Adam
20150 citations
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Bindle: 2.0.3
Brian D. O'Connor, S. Watt, Amish Patel, niall-byrne +9 more
20150 citations
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Bindle: 2.0.1
Brian D. O'Connor, Denis Yuen, Amish Patel, Adam +9 more
20150 citations
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pancancer-bag: 1.0-beta.0
Denis Yuen, Brian D. O'Connor, niall-byrne, Adam +1 more
20150 citations
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Bindle: 2.0.0
Brian D. O'Connor, Denis Yuen, Amish Patel, Adam +9 more
20150 citations
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Bindle: 2.0.2
Brian D. O'Connor, S. Watt, Amish Patel, niall-byrne +9 more
20150 citations
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pancancer-bag: 1.0-beta.3
Denis Yuen, Brian D. O'Connor, niall-byrne, Adam +1 more
20150 citations
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seqware: 1.1.2
Denis Yuen, Brian D. O'Connor, Yl, Morgan L. Taschuk +12 more
20150 citations
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pancancer-bag: 1.0.1-rc.0
Denis Yuen, Brian D. O'Connor, S. Shorser, niall-byrne +2 more
20150 citations
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Bindle: 2.0-rc.0
Brian D. O'Connor, S. Watt, Amish Patel, niall-byrne +8 more
20150 citations
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pancancer-bag: 1.0.1-alpha.0
Denis Yuen, Brian D. O'Connor, S. Shorser, niall-byrne +2 more
20150 citations
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seqware: 1.2.0-alpha.0
Denis Yuen, R. Suri, Brian D. O'Connor, Maksym Max Pikhteryev +12 more
20150 citations
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seqware-bag: 1.0-beta.2
Denis Yuen, S. Watt, Adam
20150 citations
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Bindle 2.0-alpha.5
Brian D. O'Connor, S. Watt, Amish Patel, niall-byrne +8 more
20150 citations
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pancancer-bag: 1.0-beta.1
Denis Yuen, Brian D. O'Connor, niall-byrne, Adam +1 more
20150 citations
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pancancer-bag: 1.0-alpha.1
Denis Yuen
20140 citations
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seqware-bag: 1.0-alpha.3
Denis Yuen, S. Watt, Adam
20140 citations
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Bindle 2.0-alpha.0
Brian D. O'Connor, Amish Patel, Jmg-Oicr, Denis Yuen +5 more
20140 citations
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Bindle: 2.0-alpha.1
Brian D. O'Connor, S. Watt, Amish Patel, Jmg-Oicr +6 more
20140 citations
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Bindle: 2.0-alpha.3
Brian D. O'Connor, S. Watt, Amish Patel, Jmg-Oicr +7 more
20140 citations
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Oozie-SGE 1.0.2
Denis Yuen, Brian D. O'Connor
20140 citations
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seqware-bag: 1.0-alpha.4
Denis Yuen, S. Watt, Adam
20140 citations
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SeqWare 1.0.17
Denis Yuen, Brian D. O'Connor, Yl, Morgan L. Taschuk +9 more
20140 citations
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seqware-bag: 1.0-alpha.2
Denis Yuen, S. Watt, Adam
20140 citations
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seqware-bag: 1.0-alpha.1
Denis Yuen, S. Watt, Adam
20140 citations
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pancancer-bag: 1.0-alpha.2
Denis Yuen, Brian D. O'Connor, Adam, gmihaiescu
20140 citations
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Bindle: 2.0-alpha.4
Brian D. O'Connor, Amish Patel, Denis Yuen, Adam +7 more
20140 citations
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SPIDER: Reconstructive Protein Homology Search with De Novo Sequencing Tags
Denis Yuen
20110 citations
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Improving de novo sequencing accuracy for Ion Trap data in PEAKS software
Denis Yuen, B. Ma, Iain Rogers
20070 citations
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