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Exploring the Microbiome Analysis and Visualization Landscape
Research on the microbiome has boomed recently, which resulted in a wide range of tools, packages, and algorithms to analyze microbiome data. Here we investigate and map currently existing tools that can be used to perform visual analysis on the microbiome, and associate the including methods, visua...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9580862/ https://www.ncbi.nlm.nih.gov/pubmed/36303773 http://dx.doi.org/10.3389/fbinf.2021.774631 |
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author | Peeters, Jannes Thas, Olivier Shkedy, Ziv Kodalci, Leyla Musisi, Connie Owokotomo, Olajumoke Evangelina Dyczko, Aleksandra Hamad, Ibrahim Vangronsveld, Jaco Kleinewietfeld, Markus Thijs, Sofie Aerts, Jan |
author_facet | Peeters, Jannes Thas, Olivier Shkedy, Ziv Kodalci, Leyla Musisi, Connie Owokotomo, Olajumoke Evangelina Dyczko, Aleksandra Hamad, Ibrahim Vangronsveld, Jaco Kleinewietfeld, Markus Thijs, Sofie Aerts, Jan |
author_sort | Peeters, Jannes |
collection | PubMed |
description | Research on the microbiome has boomed recently, which resulted in a wide range of tools, packages, and algorithms to analyze microbiome data. Here we investigate and map currently existing tools that can be used to perform visual analysis on the microbiome, and associate the including methods, visual representations and data features to the research objectives currently of interest in microbiome research. The analysis is based on a combination of a literature review and workshops including a group of domain experts. Both the reviewing process and workshops are based on domain characterization methods to facilitate communication and collaboration between researchers from different disciplines. We identify several research questions related to microbiomes, and describe how different analysis methods and visualizations help in tackling them. |
format | Online Article Text |
id | pubmed-9580862 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-95808622022-10-26 Exploring the Microbiome Analysis and Visualization Landscape Peeters, Jannes Thas, Olivier Shkedy, Ziv Kodalci, Leyla Musisi, Connie Owokotomo, Olajumoke Evangelina Dyczko, Aleksandra Hamad, Ibrahim Vangronsveld, Jaco Kleinewietfeld, Markus Thijs, Sofie Aerts, Jan Front Bioinform Bioinformatics Research on the microbiome has boomed recently, which resulted in a wide range of tools, packages, and algorithms to analyze microbiome data. Here we investigate and map currently existing tools that can be used to perform visual analysis on the microbiome, and associate the including methods, visual representations and data features to the research objectives currently of interest in microbiome research. The analysis is based on a combination of a literature review and workshops including a group of domain experts. Both the reviewing process and workshops are based on domain characterization methods to facilitate communication and collaboration between researchers from different disciplines. We identify several research questions related to microbiomes, and describe how different analysis methods and visualizations help in tackling them. Frontiers Media S.A. 2021-12-02 /pmc/articles/PMC9580862/ /pubmed/36303773 http://dx.doi.org/10.3389/fbinf.2021.774631 Text en Copyright © 2021 Peeters, Thas, Shkedy, Kodalci, Musisi, Owokotomo, Dyczko, Hamad, Vangronsveld, Kleinewietfeld, Thijs and Aerts. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Bioinformatics Peeters, Jannes Thas, Olivier Shkedy, Ziv Kodalci, Leyla Musisi, Connie Owokotomo, Olajumoke Evangelina Dyczko, Aleksandra Hamad, Ibrahim Vangronsveld, Jaco Kleinewietfeld, Markus Thijs, Sofie Aerts, Jan Exploring the Microbiome Analysis and Visualization Landscape |
title | Exploring the Microbiome Analysis and Visualization Landscape |
title_full | Exploring the Microbiome Analysis and Visualization Landscape |
title_fullStr | Exploring the Microbiome Analysis and Visualization Landscape |
title_full_unstemmed | Exploring the Microbiome Analysis and Visualization Landscape |
title_short | Exploring the Microbiome Analysis and Visualization Landscape |
title_sort | exploring the microbiome analysis and visualization landscape |
topic | Bioinformatics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9580862/ https://www.ncbi.nlm.nih.gov/pubmed/36303773 http://dx.doi.org/10.3389/fbinf.2021.774631 |
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