Panache: a web browser-based viewer for linearized pangenomes
Pangenomics evolved since its first applications on bacteria, extending from the study of genes for a given population to the study of all of its sequences available. While multiple methods are being developed to construct pangenomes in eukaryotic species there is still a gap for efficient and user-...
| Autores principales: | , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Oxford University Press
2021
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/115324 |
| _version_ | 1855531858007162880 |
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| author | Durant, Éloi Sabot, François Conte, Matthieu Rouard, Mathieu |
| author_browse | Conte, Matthieu Durant, Éloi Rouard, Mathieu Sabot, François |
| author_facet | Durant, Éloi Sabot, François Conte, Matthieu Rouard, Mathieu |
| author_sort | Durant, Éloi |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Pangenomics evolved since its first applications on bacteria, extending from the study of genes for a given population to the study of all of its sequences available. While multiple methods are being developed to construct pangenomes in eukaryotic species there is still a gap for efficient and user-friendly visualization tools. Emerging graph representations come with their own challenges, and linearity remains a suitable option for user-friendliness.We introduce Panache, a tool for the visualization and exploration of linear representations of gene-based and sequence-based pangenomes. It uses a layout similar to genome browsers to display presence absence variations and additional tracks along a linear axis with a pangenomics perspective.Panache is available at github.com/SouthGreenPlatform/panache under the MIT License. |
| format | Journal Article |
| id | CGSpace115324 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1153242025-11-11T18:55:27Z Panache: a web browser-based viewer for linearized pangenomes Durant, Éloi Sabot, François Conte, Matthieu Rouard, Mathieu monitoring systems digital technology innovation adoption genomes nucleotide sequence tecnología digital adopción de innovaciones genomas Pangenomics evolved since its first applications on bacteria, extending from the study of genes for a given population to the study of all of its sequences available. While multiple methods are being developed to construct pangenomes in eukaryotic species there is still a gap for efficient and user-friendly visualization tools. Emerging graph representations come with their own challenges, and linearity remains a suitable option for user-friendliness.We introduce Panache, a tool for the visualization and exploration of linear representations of gene-based and sequence-based pangenomes. It uses a layout similar to genome browsers to display presence absence variations and additional tracks along a linear axis with a pangenomics perspective.Panache is available at github.com/SouthGreenPlatform/panache under the MIT License. 2021-12-07 2021-10-06T09:13:33Z 2021-10-06T09:13:33Z Journal Article https://hdl.handle.net/10568/115324 en Open Access application/pdf Oxford University Press Durant, É.; Sabot, F.; Conte, M.; Rouard, M. (2021) Panache: a web browser-based viewer for linearized pangenomes. Bioinformatics btab688 ISSN: 1367-4803 |
| spellingShingle | monitoring systems digital technology innovation adoption genomes nucleotide sequence tecnología digital adopción de innovaciones genomas Durant, Éloi Sabot, François Conte, Matthieu Rouard, Mathieu Panache: a web browser-based viewer for linearized pangenomes |
| title | Panache: a web browser-based viewer for linearized pangenomes |
| title_full | Panache: a web browser-based viewer for linearized pangenomes |
| title_fullStr | Panache: a web browser-based viewer for linearized pangenomes |
| title_full_unstemmed | Panache: a web browser-based viewer for linearized pangenomes |
| title_short | Panache: a web browser-based viewer for linearized pangenomes |
| title_sort | panache a web browser based viewer for linearized pangenomes |
| topic | monitoring systems digital technology innovation adoption genomes nucleotide sequence tecnología digital adopción de innovaciones genomas |
| url | https://hdl.handle.net/10568/115324 |
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