Vincent J. Carey

27 papers Misc 2Journal 24
YearRankTypeTitle / Venue / Authors
2025 J jnl
Bioconductor: Planning a third decade of comprehensive support for genomic data science.
Patterns
Vincent J. Carey
2025 J jnl
Eleven quick tips for writing a Bioconductor package.
PLoS Comput. Biol.
Charlotte Soneson, Lori A. Shepherd, Marcel Ramos, Kevin C. Rue-Albrecht, Johannes Rainer, Hervé Pagès, Vincent J. Carey
2024 J jnl
Partial correlation network analysis identifies coordinated gene expression within a regional cluster of COPD genome-wide association signals.
PLoS Comput. Biol.
Michele Gentili, Kimberly Glass, Enrico Maiorino, Brian D. Hobbs, Zhonghui Xu, Peter J. Castaldi, Michael H. Cho, Craig P. Hersh, Dandi Qiao, Jarrett D. Morrow, Vincent J. Carey, John Platig, Edwin K. Silverman
2023 J jnl
Curated single cell multimodal landmark datasets for R/Bioconductor.
PLoS Comput. Biol.
Kelly B. Eckenrode, Dario Righelli, Marcel Ramos, Ricard Argelaguet, Christophe Vanderaa, Ludwig Geistlinger, Aedín C. Culhane, Laurent Gatto, Vincent J. Carey, Martin Morgan, Davide Risso, Levi Waldron
2023 J jnl
RaggedExperiment: the missing link between genomic ranges and matrices in Bioconductor.
Bioinform.
Marcel Ramos, Martin Morgan, Ludwig Geistlinger, Vincent J. Carey, Levi Waldron
2021 J jnl
Toward a gold standard for benchmarking gene set enrichment analysis.
Briefings Bioinform.
Ludwig Geistlinger, Gergely Csaba, Mara Santarelli, Marcel Ramos, Lucas Schiffer, Nitesh Turaga, Charity W. Law, Sean Davis, Vincent J. Carey, Martin Morgan, Ralf Zimmer, Levi Waldron
2019 J jnl
BiocPkgTools: Toolkit for mining the
F1000Research
Shian Su, Vincent J. Carey, Lori A. Shepherd, Matthew E. Ritchie, Martin T. Morgan, Sean Davis
2019 J jnl
deconvSeq: deconvolution of cell mixture distribution in sequencing data.
Bioinform.
Rose Du, Vincent J. Carey, Scott T. Weiss
2019 J jnl
restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor.
F1000Research
Shweta Gopaulakrishnan, Samuela Pollack, BJ Stubbs, Hervé Pagès, John Readey, Sean Davis, Levi Waldron, Martin Morgan, Vincent J. Carey
2017 J jnl
ogttMetrics: Data structures and algorithms for oral glucose tolerance tests.
F1000Research
Benjamin J. Stubbs, Keith Frankston, Marcel Ramos, Nancy Laranjo, Frank M. Sacks, Vincent J. Carey
2016 J jnl
Public data and open source tools for multi-assay genomic investigation of disease.
Briefings Bioinform.
Lavanya Kannan, Marcel Ramos, Angela Re, Nehme Hachem, Zhaleh Safikhani, Deena M. A. Gendoo, Sean Davis, David Gomez-Cabrero, Robert Castelo, Kasper D. Hansen, Vincent J. Carey, Martin Morgan, Aedín C. Culhane, Benjamin Haibe-Kains, Levi Waldron
2014 J jnl
VariantAnnotation: a Bioconductor package for exploration and annotation of genetic variants.
Bioinform.
Valerie Obenchain, Michael F. Lawrence, Vincent J. Carey, Stephanie M. Gogarten, Paul Shannon, Martin Morgan
2013 J jnl
Software for Computing and Annotating Genomic Ranges.
PLoS Comput. Biol.
Michael F. Lawrence, Wolfgang Huber, Hervé Pagès, Patrick Aboyoun, Marc Carlson, Robert Gentleman, Martin T. Morgan, Vincent J. Carey
2011 J jnl
Quantifying differential gene connectivity between disease states for objective identification of disease-relevant genes.
BMC Syst. Biol.
Jen-hwa Chu, Ross Lazarus, Vincent J. Carey, Benjamin A. Raby
2011 — ch.
R Language.
International Encyclopedia of Statistical Science
Robert Gentleman, Wolfgang Huber, Vincent J. Carey
2009 J jnl
A graphical model approach for inferring large-scale networks integrating gene expression and genetic polymorphism.
BMC Syst. Biol.
Jen-hwa Chu, Scott T. Weiss, Vincent J. Carey, Benjamin A. Raby
2009 J jnl
Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x.
Bioinform.
Vincent J. Carey, Adam R. Davis, Michael F. Lawrence, Robert Gentleman, Benjamin A. Raby
2009 Misc conf
Interpreting Genetics Of Gene Expression: Integrative Architecture In Bioconductor.
Pacific Symposium on Biocomputing
Vincent J. Carey, Robert Gentleman
2009 J jnl
Platform dependence of inference on gene-wise and gene-set involvement in human lung development.
BMC Bioinform.
Rose Du, Kelan Tantisira, Vincent J. Carey, Soumyaroop Bhattacharya, Stephanie Metje, Alvin T. Kho, Barbara J. Klanderman, Roger Gaedigk, Ross Lazarus, Thomas J. Mariani, J. Steven Leeder, Scott T. Weiss
2009 J jnl
Power enhancement via multivariate outlier testing with gene expression arrays.
Bioinform.
Adam L. Asare, Zhong Gao, Vincent J. Carey, Richard Wang, Vicki Seyfert-Margolis
2009 J jnl
rtracklayer: an R package for interfacing with genome browsers.
Bioinform.
Michael F. Lawrence, Robert Gentleman, Vincent J. Carey
2008 Misc conf
SGDI: System for Genomic Data Integration.
Pacific Symposium on Biocomputing
Vincent J. Carey, Jeff Gentry, Deepayan Sarkar, Robert Gentleman, Srini Ramaswamy
2007 J jnl
GGtools: analysis of genetics of gene expression in bioconductor.
Bioinform.
Vincent J. Carey, Martin Morgan, Seth Falcon, Ross Lazarus, Robert Gentleman
2007 J jnl
Graphs in molecular biology.
BMC Bioinform.
Wolfgang Huber, Vincent J. Carey, Li Long, Seth Falcon, Robert Gentleman
2007 J jnl
Machine Learning and Its Applications to Biology.
PLoS Comput. Biol.
Adi L. Tarca, Vincent J. Carey, Xue-wen Chen, Roberto Romero, Sorin Draghici
2005 J jnl
Network structures and algorithms in Bioconductor.
Bioinform.
Vincent J. Carey, Jeff Gentry, Elizabeth Whalen, Robert Gentleman
2003 J jnl
An extensible application for assembling annotation for genomic data.
Bioinform.
Jianhua Zhang, Vincent J. Carey, Robert Gentleman