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RainBio: Proportional visualization of large sets in biology

Jean-Baptiste Lamy, Rosy Tsopra
2019 IEEE Transactions on Visualization and Computer Graphics  
Set visualization is a well-known task in information visualization. In biology, it is used for comparing visually sets of genes or proteins, typically using Venn diagrams.  ...  However, limitations of the Venn diagram are well-known: they are limited to 6 sets and difficult to read above 4.  ...  [45] compared four techniques for set visualization: Venn diagram, standard Euler diagram (using complex shapes), Euler diagram with shading (i.e.  ... 
doi:10.1109/tvcg.2019.2921544 pmid:31180862 fatcat:7dfphxqobnawvkjalqljggxgze

SpEuler: Semantics-preserving Euler Diagrams [article]

Rebecca Kehlbeck, Jochen Görtler, Yunhai Wang, Oliver Deussen
2021 arXiv   pre-print
We show the usefulness of our method for visualizing set-typed data using examples from text analysis and infographics.  ...  To facilitate insights into set connectivity and to leverage semantic relations between intersections, we propose a fast two-step layout technique for Euler diagrams that are both well-matched and well-formed  ...  We would further like to thank Matthias Albrecht for help during the implementation and Patrick Paetzold for valuable feedback during the revision process.  ... 
arXiv:2108.03529v1 fatcat:nlze6ce4srce3dxse7g623mjn4

Set Visualization Challenges for Big Data

Luana Micallef
2016 Diagrams  
This talk will provide a brief overview of the state-of-the-art of set visualization, followed by an in-depth discussion of challenges and open questions when dealing with real-world set-typed data.  ...  Euler and Venn diagrams are widely used to reason about sets and their relationships.  ...  However, Euler diagrams are not scalable and are unable to depict large data collections with numerous sets and set relations [11] .  ... 
dblp:conf/diagrams/Micallef16 fatcat:formlworfvhz3gqeqnti3qtrje

An Application of Mosaic Diagrams to the Visualization of Set Relationships [article]

Saturnino Luz, Masood Masoodian
2017 arXiv   pre-print
Venn and Euler diagrams are the best known visual representations of sets and their relationships (intersections, containment or subsets, exclusion or disjointness).  ...  Among them, linear diagrams have been shown to compare favourably to Venn and Euler diagrams, in supporting non-interactive assessment of set relationships.  ...  Visual representation of sets and their relationships is most commonly done through Venn and Euler diagrams (Baron, 1969) .  ... 
arXiv:1711.03065v1 fatcat:45x4rcyw2vbxfnca3muxxdg5zq

A Survey of Reasoning Systems Based on Euler Diagrams

Gem Stapleton
2005 Electronical Notes in Theoretical Computer Science  
Euler diagrams have been used for centuries as a means for conveying ideas in an intuitive, informal way.  ...  Most of these systems extend Euler diagrams by adding further syntax to increase expressiveness. In this paper we survey such systems and draw comparisons between them.  ...  Venn-II diagrams cannot express arbitrary finite lower and upper bounds on the cardinalities of sets.  ... 
doi:10.1016/j.entcs.2005.02.022 fatcat:mnf4zv54hvchpkranod5stucdq

Visualizing Sets and Set-typed Data: State-of-the-Art and Future Challenges [article]

Bilal Alsallakh, Luana Micallef, Wolfgang Aigner, Helwig Hauser, Silvia Miksch, Peter Rodgers
2014 Eurographics Conference on Visualization  
We classify these techniques into 7 main categories according to the visual representations they use and the tasks they support.  ...  A variety of data analysis problems can be modelled by defining multiple sets over a collection of elements and analyzing the relations between these sets.  ...  Euler and Venn Diagrams Euler and Venn diagrams are amongst the oldest [Bar69] and most popular set visualizations.  ... 
doi:10.2312/eurovisstar.20141170 dblp:conf/vissym/AlsallakhMAHMR14 fatcat:kdpd63ly55fire6ykyrdz2shwi

Special Issue: Guest Editors' Introduction

Peter Chapman, Luana Micallef
2014 Journal of Visual Languages and Computing  
Over the years, they have been extensively used in areas such as biosciences, business, criminology and national security to intuitively visualize relationships and relative cardinalities of sets.  ...  On a completely different topic, Jean Flower, Gem Stapleton and Peter Rodgers introduce us to three dimensional space in the final paper of the Special Issue: On the Drawability of 3D Venn and Euler Diagrams  ... 
doi:10.1016/j.jvlc.2013.10.006 fatcat:ir36wgz5uvgmdbgxyj2hmnflpq

A comparison of linear and mosaic diagrams for set visualization

Saturnino Luz, Masood Masoodian
2018 Information Visualization  
Linear diagrams have been shown to compare favourably to better known forms of set visualization, such as Venn and Euler diagrams, in supporting noninteractive assessment of set relationships.  ...  In this paper, we present an experimental comparison of linear and mosaic diagrams for visualization of set relationships, in terms of accuracy, time-to-answer, and subjective ratings of perceived task  ...  Content used here which are related to the final study by Rodgers et al. [31] are available at  ... 
doi:10.1177/1473871618754343 fatcat:tsebimocnvfwpkdjnjyhyqwcji

VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays

Hans A Kestler, Andre Muller, Johann M Kraus, Malte Buchholz, Thomas M Gress, Hongfang Liu, David W Kane, Barry R Zeeberg, John N Weinstein
2008 BMC Bioinformatics  
The cardinalities of sets and intersection sets are represented by area-proportional Euler diagrams and their corresponding graphical (circular or polygonal) intersection areas.  ...  Results: We present an alternative visualization approach, area-proportional Euler diagrams, showing set relationships with semi-quantitative size information in a single diagram to support biological  ...  This research was funded in part by a "Forschungsdozent" grant through the Stifterverband für die Deutsche Wissenschaft and by the German Science Foundation (SFB 518, Project C05) to HAK.  ... 
doi:10.1186/1471-2105-9-67 pmid:18230172 pmcid:PMC2335321 fatcat:yjitwn7gjfaphjevfvtzuxypvi

VennPlex–A Novel Venn Diagram Program for Comparing and Visualizing Datasets with Differentially Regulated Datapoints

Huan Cai, Hongyu Chen, Tie Yi, Caitlin M. Daimon, John P. Boyle, Chris Peers, Stuart Maudsley, Bronwen Martin, Niall James Haslam
2013 PLoS ONE  
Citation: Cai H, Chen H, Yi T, Daimon CM, Boyle JP, et al. (2013) VennPlex-A Novel Venn Diagram Program for Comparing and Visualizing Datasets with Differentially Regulated Datapoints.  ...  With the development of increasingly large and complex genomic and proteomic data sets, an enhancement in the complexity of available Venn diagram analytical programs is becoming increasingly important  ...  Becker and Dr William H. Wood III (National Institute on Aging) for their help with generating the gene array data. Author Contributions  ... 
doi:10.1371/journal.pone.0053388 pmid:23308210 pmcid:PMC3538763 fatcat:s5h4q6tbrvbb7pgn4b6ss56tsa

Visualizing set concordance with permutation matrices and fan diagrams

Bohyoung Kim, Bongshin Lee, Jinwook Seo
2007 Interacting with computers  
Not only do we use a standard Venn diagram, we also introduce a new diagram called Fan diagram that allows users to compare two or three sets without any inconsistencies that may exist in Venn diagrams  ...  A qualitative user study was conducted to evaluate how our tool works in comparison with a traditional set visualization tool based on a Venn diagram.  ...  We also appreciate the support from Eric Hoffman and his lab at the Children's National Medical Center.  ... 
doi:10.1016/j.intcom.2007.05.004 pmid:19641637 pmcid:PMC2717505 fatcat:u7jpzov7tvfhxdnftxaqf2xy6e

What Can Spider Diagrams Say? [chapter]

Gem Stapleton, John Howse, John Taylor, Simon Thompson
2004 Lecture Notes in Computer Science  
Spider diagrams are a visual notation for expressing logical statements.  ...  For the more challenging converse we show there exists a finite set of models for a sentence S that can be used to classify all the models for S.  ...  John Howse, John Taylor and Simon Thompson are partially supported by the UK EPSRC grant numbers GR/R63516 and GR/R63509 for the reasoning with diagrams project.  ... 
doi:10.1007/978-3-540-25931-2_12 fatcat:s4vqfh5nuff4vks6ctavblukqm

On the Completeness and Expressiveness of Spider Diagram Systems [chapter]

John Howse, Fernando Molina, John Taylor
2000 Lecture Notes in Computer Science  
Spider diagram systems provide a visual language that extends the popular and intuitive Venn diagrams and Euler circles.  ...  Designed to complement object-oriented modelling notations in the specification of large software systems they can be used to reason diagrammatically about sets, their cardinalities and their relationships  ...  Our longer term aim is to prove similar results for constraint diagrams, and to provide the necessary mathematical underpinning for the development of software tools to aid the diagrammatic reasoning process  ... 
doi:10.1007/3-540-44590-0_8 fatcat:4wji7m6flfggzdl75nu7aebm5i

Exact and Approximate Area-Proportional Circular Venn and Euler Diagrams

L. Wilkinson
2012 IEEE Transactions on Visualization and Computer Graphics  
Scientists conducting microarray and other experiments use Venn and Euler diagrams to analyze and illustrate their results.  ...  Most existing computer programs that implement Venn and Euler diagrams are limited to three sets.  ...  Venn and Euler diagrams have had wide use in teaching logic and probability. In almost all of these applications, their use has been confined to two or three circles of equal size.  ... 
doi:10.1109/tvcg.2011.56 pmid:21383412 fatcat:jjlztzgddvfmjjruyqih7dj34e

Drawing Area-Proportional Venn and Euler Diagrams [chapter]

Stirling Chow, Frank Ruskey
2004 Lecture Notes in Computer Science  
These area-proportional Venn diagrams have an enhanced ability over traditional Venn diagrams to visually convey information about data sets with interacting characteristics.  ...  We develop algorithms for drawing area-proportional Venn diagrams for any population distribution over two characteristics using circles and over three characteristics using rectangles and near-rectangular  ...  Irrespective of particular problems, Venn and Euler diagrams can also be used to effectively visualize data sets.  ... 
doi:10.1007/978-3-540-24595-7_44 fatcat:yfi5wazcb5aftgrzcs7lzv5tby
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