UpSetR: an R package for the visualization of intersecting sets and their properties
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Abstract
MOTIVATION: Venn and Euler diagrams are a popular yet inadequate solution for quantitative visualization of set intersections. A scalable alternative to Venn and Euler diagrams for visualizing intersecting sets and their properties is needed. RESULTS: We developed UpSetR, an open source R package that employs a scalable matrix-based visualization to show intersections of sets, their size, and other properties. AVAILABILITY AND IMPLEMENTATION: UpSetR is available at https://github.com/hms-dbmi/UpSetR/ and released under the MIT License. A Shiny app is available at https://gehlenborglab.shinyapps.io/upsetr/ . CONTACT: nils@hms.harvard.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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- Authors
- Conway, J. R., Lex, A., & Gehlenborg, N.
- Affiliations
- Harvard University (US)
- University of Utah (US)
- Corresponding author
- Gehlenborg, Nils
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2017-06-22
- Volume
- 33
- Issue
- 18
- Pages
- 2938-2940
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- PMC
- PMC5870712
- OpenAlex
- W2952615074
- Cited by
- 3,586
- References
- 11
- Citations by year
- 2026: 440 · 2025: 569 · 2024: 604 · 2023: 498 · 2022: 447 · 2021: 475 · 2020: 329 · 2019: 138 · 2018: 71 · 2017: 12
- FWCI
- 62.19
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Bioinformatics (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Digital Access to Scholarship at Harvard (DASH) (Harvard University) (submittedVersion, cc-by)
- Funders
- National Institutes of Health (R00HG007583, U54HG007963, U01CA198935)
- Topics
- Physical Sciences › Computer Science › Computer Vision and Pattern Recognition › Data Visualization and Analytics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- Venn diagrams, Euler diagrams, R package, Shiny app, set size
- MeSH terms
- Software, Sequence Analysis, DNA, Computational Biology, Genotyping Techniques
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