VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

被引:2004
作者
Chen, Hanbo [1 ]
Boutros, Paul C. [1 ]
机构
[1] MaRS Ctr, Ontario Inst Canc Res, Toronto, ON M5G 0A3, Canada
来源
BMC BIOINFORMATICS | 2011年 / 12卷
基金
加拿大健康研究院;
关键词
Venn Diagram; Tiff File; Euler Diagram; Simple Geometrical Shape; Graphical Accuracy;
D O I
10.1186/1471-2105-12-35
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Background: Visualization of orthogonal (disjoint) or overlapping datasets is a common task in bioinformatics. Few tools exist to automate the generation of extensively-customizable, high-resolution Venn and Euler diagrams in the R statistical environment. To fill this gap we introduce VennDiagram, an R package that enables the automated generation of highly-customizable, high-resolution Venn diagrams with up to four sets and Euler diagrams with up to three sets. Results: The VennDiagram package offers the user the ability to customize essentially all aspects of the generated diagrams, including font sizes, label styles and locations, and the overall rotation of the diagram. We have implemented scaled Venn and Euler diagrams, which increase graphical accuracy and visual appeal. Diagrams are generated as high-definition TIFF files, simplifying the process of creating publication-quality figures and easing integration with established analysis pipelines. Conclusions: The VennDiagram package allows the creation of high quality Venn and Euler diagrams in the R statistical environment.
引用
收藏
页数:7
相关论文
共 12 条
[1]   Unsupervised pattern recognition: An introduction to the whys and wherefores of clustering microarray data [J].
Boutros, PC ;
Okey, AB .
BRIEFINGS IN BIOINFORMATICS, 2005, 6 (04) :331-343
[2]   NAViGaTOR: Network Analysis, Visualization and Graphing Toronto [J].
Brown, Kevin R. ;
Otasek, David ;
Ali, Muhammad ;
McGuffin, Michael J. ;
Xie, Wing ;
Devani, Baiju ;
van Toch, Ian Lawson ;
Jurisica, Igor .
BIOINFORMATICS, 2009, 25 (24) :3327-3329
[3]  
Chow S., 2005, EULER DIAGRAMS 2005
[4]   Seven-set Venn diagrams with rotational and polar symmetry [J].
Edwards, AWF .
COMBINATORICS PROBABILITY & COMPUTING, 1998, 7 (02) :149-152
[5]   Bioconductor: open software development for computational biology and bioinformatics [J].
Gentleman, RC ;
Carey, VJ ;
Bates, DM ;
Bolstad, B ;
Dettling, M ;
Dudoit, S ;
Ellis, B ;
Gautier, L ;
Ge, YC ;
Gentry, J ;
Hornik, K ;
Hothorn, T ;
Huber, W ;
Iacus, S ;
Irizarry, R ;
Leisch, F ;
Li, C ;
Maechler, M ;
Rossini, AJ ;
Sawitzki, G ;
Smith, C ;
Smyth, G ;
Tierney, L ;
Yang, JYH ;
Zhang, JH .
GENOME BIOLOGY, 2004, 5 (10)
[6]   BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams [J].
Hulsen, Tim ;
de Vlieg, Jacob ;
Alkema, Wynand .
BMC GENOMICS, 2008, 9 (1)
[7]   VennMaster:: Area-proportional Euler diagrams for functional GO analysis of microarrays [J].
Kestler, Hans A. ;
Mueller, Andre ;
Kraus, Johann M. ;
Buchholz, Malte ;
Gress, Thomas M. ;
Liu, Hongfang ;
Kane, David W. ;
Zeeberg, Barry R. ;
Weinstein, John N. .
BMC BIOINFORMATICS, 2008, 9 (1) :67
[8]   Visualizing set concordance with permutation matrices and fan diagrams [J].
Kim, Bohyoung ;
Lee, Bongshin ;
Seo, Jinwook .
INTERACTING WITH COMPUTERS, 2007, 19 (5-6) :630-643
[9]   How to visually interpret biological data using networks [J].
Merico, Daniele ;
Gfeller, David ;
Bader, Gary D. .
NATURE BIOTECHNOLOGY, 2009, 27 (10) :921-924
[10]  
Oliveros JC., Venny: An Interactive Tool for Comparing Lists with Venn's Diagrams