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XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data
BACKGROUND: Though cluster analysis has become a routine analytic task for bioinformatics research, it is still arduous for researchers to assess the quality of a clustering result. To select the best clustering method and its parameters for a dataset, researchers have to run multiple clustering alg...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4547151/ https://www.ncbi.nlm.nih.gov/pubmed/26328893 http://dx.doi.org/10.1186/1471-2105-16-S11-S5 |
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author | L'Yi, Sehi Ko, Bongkyung Shin, DongHwa Cho, Young-Joon Lee, Jaeyong Kim, Bohyoung Seo, Jinwook |
author_facet | L'Yi, Sehi Ko, Bongkyung Shin, DongHwa Cho, Young-Joon Lee, Jaeyong Kim, Bohyoung Seo, Jinwook |
author_sort | L'Yi, Sehi |
collection | PubMed |
description | BACKGROUND: Though cluster analysis has become a routine analytic task for bioinformatics research, it is still arduous for researchers to assess the quality of a clustering result. To select the best clustering method and its parameters for a dataset, researchers have to run multiple clustering algorithms and compare them. However, such a comparison task with multiple clustering results is cognitively demanding and laborious. RESULTS: In this paper, we present XCluSim, a visual analytics tool that enables users to interactively compare multiple clustering results based on the Visual Information Seeking Mantra. We build a taxonomy for categorizing existing techniques of clustering results visualization in terms of the Gestalt principles of grouping. Using the taxonomy, we choose the most appropriate interactive visualizations for presenting individual clustering results from different types of clustering algorithms. The efficacy of XCluSim is shown through case studies with a bioinformatician. CONCLUSIONS: Compared to other relevant tools, XCluSim enables users to compare multiple clustering results in a more scalable manner. Moreover, XCluSim supports diverse clustering algorithms and dedicated visualizations and interactions for different types of clustering results, allowing more effective exploration of details on demand. Through case studies with a bioinformatics researcher, we received positive feedback on the functionalities of XCluSim, including its ability to help identify stably clustered items across multiple clustering results. |
format | Online Article Text |
id | pubmed-4547151 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-45471512015-09-10 XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data L'Yi, Sehi Ko, Bongkyung Shin, DongHwa Cho, Young-Joon Lee, Jaeyong Kim, Bohyoung Seo, Jinwook BMC Bioinformatics Research BACKGROUND: Though cluster analysis has become a routine analytic task for bioinformatics research, it is still arduous for researchers to assess the quality of a clustering result. To select the best clustering method and its parameters for a dataset, researchers have to run multiple clustering algorithms and compare them. However, such a comparison task with multiple clustering results is cognitively demanding and laborious. RESULTS: In this paper, we present XCluSim, a visual analytics tool that enables users to interactively compare multiple clustering results based on the Visual Information Seeking Mantra. We build a taxonomy for categorizing existing techniques of clustering results visualization in terms of the Gestalt principles of grouping. Using the taxonomy, we choose the most appropriate interactive visualizations for presenting individual clustering results from different types of clustering algorithms. The efficacy of XCluSim is shown through case studies with a bioinformatician. CONCLUSIONS: Compared to other relevant tools, XCluSim enables users to compare multiple clustering results in a more scalable manner. Moreover, XCluSim supports diverse clustering algorithms and dedicated visualizations and interactions for different types of clustering results, allowing more effective exploration of details on demand. Through case studies with a bioinformatics researcher, we received positive feedback on the functionalities of XCluSim, including its ability to help identify stably clustered items across multiple clustering results. BioMed Central 2015-08-13 /pmc/articles/PMC4547151/ /pubmed/26328893 http://dx.doi.org/10.1186/1471-2105-16-S11-S5 Text en Copyright © 2015 L'Yi et al. http://creativecommons.org/licenses/by/4.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research L'Yi, Sehi Ko, Bongkyung Shin, DongHwa Cho, Young-Joon Lee, Jaeyong Kim, Bohyoung Seo, Jinwook XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title | XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title_full | XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title_fullStr | XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title_full_unstemmed | XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title_short | XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
title_sort | xclusim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4547151/ https://www.ncbi.nlm.nih.gov/pubmed/26328893 http://dx.doi.org/10.1186/1471-2105-16-S11-S5 |
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