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P'ng C, Green J, Chong LC, Waggott D, Prokopec SD, Shamsi M, Nguyen F, Mak DYF, Lam F, Albuquerque MA, Wu Y, Jung EH, Starmans MHW, Chan-Seng-Yue MA, Yao CQ, Liang B, Lalonde E, Haider S, Simone NA, Sendorek D, Chu KC, Moon NC, Fox NS, Grzadkowski MR, Harding NJ, Fung C, Murdoch AR, Houlahan KE, Wang J, Garcia DR, de Borja R, Sun RX, Lin X, Chen GM, Lu A, Shiah YJ, Zia A, Kearns R, Boutros PC. BPG: Seamless, automated and interactive visualization of scientific data. BMC Bioinformatics 2019; 20:42. [PMID: 30665349 PMCID: PMC6341661 DOI: 10.1186/s12859-019-2610-2] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Accepted: 01/04/2019] [Indexed: 12/16/2022] Open
Abstract
BACKGROUND We introduce BPG, a framework for generating publication-quality, highly-customizable plots in the R statistical environment. RESULTS This open-source package includes multiple methods of displaying high-dimensional datasets and facilitates generation of complex multi-panel figures, making it suitable for complex datasets. A web-based interactive tool allows online figure customization, from which R code can be downloaded for integration with computational pipelines. CONCLUSION BPG provides a new approach for linking interactive and scripted data visualization and is available at http://labs.oicr.on.ca/boutros-lab/software/bpg or via CRAN at https://cran.r-project.org/web/packages/BoutrosLab.plotting.general.
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Affiliation(s)
| | - Jeffrey Green
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | - Daryl Waggott
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | | | | | | | - Felix Lam
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | - Ying Wu
- Ontario Institute for Cancer Research, Toronto, Canada
| | - Esther H Jung
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | | | - Cindy Q Yao
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Medical Biophysics, University of Toronto, Toronto, Canada
| | - Bianca Liang
- Ontario Institute for Cancer Research, Toronto, Canada
| | - Emilie Lalonde
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Medical Biophysics, University of Toronto, Toronto, Canada
| | - Syed Haider
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | | | - Kenneth C Chu
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | - Natalie S Fox
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Medical Biophysics, University of Toronto, Toronto, Canada
| | | | | | - Clement Fung
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | - Kathleen E Houlahan
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Medical Biophysics, University of Toronto, Toronto, Canada
| | - Jianxin Wang
- Ontario Institute for Cancer Research, Toronto, Canada.,Present address: Center for Computational Research, Buffalo Institute for Genomics and Data Analytics, NYS Center for Excellence in Bioinformatics & Life Science, University at Buffalo, Buffalo, USA
| | | | | | - Ren X Sun
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Pharmacology and Toxicology, University of Toronto, Toronto, Canada
| | - Xihui Lin
- Ontario Institute for Cancer Research, Toronto, Canada
| | | | - Aileen Lu
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Pharmacology and Toxicology, University of Toronto, Toronto, Canada
| | - Yu-Jia Shiah
- Ontario Institute for Cancer Research, Toronto, Canada.,Department of Medical Biophysics, University of Toronto, Toronto, Canada
| | - Amin Zia
- Ontario Institute for Cancer Research, Toronto, Canada
| | - Ryan Kearns
- Ontario Institute for Cancer Research, Toronto, Canada
| | - Paul C Boutros
- Ontario Institute for Cancer Research, Toronto, Canada. .,Department of Medical Biophysics, University of Toronto, Toronto, Canada. .,Department of Pharmacology and Toxicology, University of Toronto, Toronto, Canada. .,Department of Human Genetics, University of California, Los Angeles, USA. .,Department of Urology, University of California, Los Angeles, USA. .,Institute for Precision Health, University of California, Los Angeles, USA. .,Jonsson Comprehensive Cancer Center, University of California, Los Angeles, USA.
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