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Sequence, a BioJS component for visualising sequences
Summary: Sequences are probably the most common piece of information in sites providing biological data resources, particularly those related to genes and proteins. Multiple visual representations of the same sequence can be found across those sites. This can lead to an inconsistency compromising bo...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
F1000Research
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4103491/ https://www.ncbi.nlm.nih.gov/pubmed/25075289 http://dx.doi.org/10.12688/f1000research.3-52.v1 |
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author | Gomez, John Jimenez, Rafael |
author_facet | Gomez, John Jimenez, Rafael |
author_sort | Gomez, John |
collection | PubMed |
description | Summary: Sequences are probably the most common piece of information in sites providing biological data resources, particularly those related to genes and proteins. Multiple visual representations of the same sequence can be found across those sites. This can lead to an inconsistency compromising both the user experience and usability while working with graphical representations of a sequence. Furthermore, the code of the visualisation module is commonly embedded and merged with the rest of the application, making it difficult to reuse it in other applications. In this paper, we present a BioJS component for visualising sequences with a set of options supporting a flexible configuration of the visual representation, such as formats, colours, annotations, and columns, among others. This component aims to facilitate a common representation across different sites, making it easier for end users to move from one site to another. Availability: http://www.ebi.ac.uk/Tools/biojs; http://dx.doi.org/10.5281/zenodo.8299 |
format | Online Article Text |
id | pubmed-4103491 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | F1000Research |
record_format | MEDLINE/PubMed |
spelling | pubmed-41034912014-07-28 Sequence, a BioJS component for visualising sequences Gomez, John Jimenez, Rafael F1000Res Web Tool Summary: Sequences are probably the most common piece of information in sites providing biological data resources, particularly those related to genes and proteins. Multiple visual representations of the same sequence can be found across those sites. This can lead to an inconsistency compromising both the user experience and usability while working with graphical representations of a sequence. Furthermore, the code of the visualisation module is commonly embedded and merged with the rest of the application, making it difficult to reuse it in other applications. In this paper, we present a BioJS component for visualising sequences with a set of options supporting a flexible configuration of the visual representation, such as formats, colours, annotations, and columns, among others. This component aims to facilitate a common representation across different sites, making it easier for end users to move from one site to another. Availability: http://www.ebi.ac.uk/Tools/biojs; http://dx.doi.org/10.5281/zenodo.8299 F1000Research 2014-02-13 /pmc/articles/PMC4103491/ /pubmed/25075289 http://dx.doi.org/10.12688/f1000research.3-52.v1 Text en Copyright: © 2014 Gomez J and Jimenez R http://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. http://creativecommons.org/publicdomain/zero/1.0/ Data associated with the article are available under the terms of the Creative Commons Zero "No rights reserved" data waiver (CC0 1.0 Public domain dedication). |
spellingShingle | Web Tool Gomez, John Jimenez, Rafael Sequence, a BioJS component for visualising sequences |
title |
Sequence, a BioJS component for visualising sequences |
title_full |
Sequence, a BioJS component for visualising sequences |
title_fullStr |
Sequence, a BioJS component for visualising sequences |
title_full_unstemmed |
Sequence, a BioJS component for visualising sequences |
title_short |
Sequence, a BioJS component for visualising sequences |
title_sort | sequence, a biojs component for visualising sequences |
topic | Web Tool |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4103491/ https://www.ncbi.nlm.nih.gov/pubmed/25075289 http://dx.doi.org/10.12688/f1000research.3-52.v1 |
work_keys_str_mv | AT gomezjohn sequenceabiojscomponentforvisualisingsequences AT jimenezrafael sequenceabiojscomponentforvisualisingsequences |