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ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2

MOTIVATION: The advent of long-read sequencing technologies has increased demand for the visualization and interpretation of transcripts. However, tools that perform such visualizations remain inflexible and lack the ability to easily identify differences between transcript structures. Here, we intr...

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Detalles Bibliográficos
Autores principales: Gustavsson, Emil K, Zhang, David, Reynolds, Regina H, Garcia-Ruiz, Sonia, Ryten, Mina
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9344834/
https://www.ncbi.nlm.nih.gov/pubmed/35751589
http://dx.doi.org/10.1093/bioinformatics/btac409
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author Gustavsson, Emil K
Zhang, David
Reynolds, Regina H
Garcia-Ruiz, Sonia
Ryten, Mina
author_facet Gustavsson, Emil K
Zhang, David
Reynolds, Regina H
Garcia-Ruiz, Sonia
Ryten, Mina
author_sort Gustavsson, Emil K
collection PubMed
description MOTIVATION: The advent of long-read sequencing technologies has increased demand for the visualization and interpretation of transcripts. However, tools that perform such visualizations remain inflexible and lack the ability to easily identify differences between transcript structures. Here, we introduce ggtranscript, an R package that provides a fast and flexible method to visualize and compare transcripts. As a ggplot2 extension, ggtranscript inherits the functionality and familiarity of ggplot2 making it easy to use. AVAILABILITY AND IMPLEMENTATION: ggtranscript is an R package available at https://github.com/dzhang32/ggtranscript (DOI: https://doi.org/10.5281/zenodo.6374061) via an open-source MIT licence. Further documentation is available at https://dzhang32.github.io/ggtranscript/.
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spelling pubmed-93448342022-08-03 ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2 Gustavsson, Emil K Zhang, David Reynolds, Regina H Garcia-Ruiz, Sonia Ryten, Mina Bioinformatics Applications Notes MOTIVATION: The advent of long-read sequencing technologies has increased demand for the visualization and interpretation of transcripts. However, tools that perform such visualizations remain inflexible and lack the ability to easily identify differences between transcript structures. Here, we introduce ggtranscript, an R package that provides a fast and flexible method to visualize and compare transcripts. As a ggplot2 extension, ggtranscript inherits the functionality and familiarity of ggplot2 making it easy to use. AVAILABILITY AND IMPLEMENTATION: ggtranscript is an R package available at https://github.com/dzhang32/ggtranscript (DOI: https://doi.org/10.5281/zenodo.6374061) via an open-source MIT licence. Further documentation is available at https://dzhang32.github.io/ggtranscript/. Oxford University Press 2022-06-25 /pmc/articles/PMC9344834/ /pubmed/35751589 http://dx.doi.org/10.1093/bioinformatics/btac409 Text en © The Author(s) 2022. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Gustavsson, Emil K
Zhang, David
Reynolds, Regina H
Garcia-Ruiz, Sonia
Ryten, Mina
ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title_full ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title_fullStr ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title_full_unstemmed ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title_short ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
title_sort ggtranscript: an r package for the visualization and interpretation of transcript isoforms using ggplot2
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9344834/
https://www.ncbi.nlm.nih.gov/pubmed/35751589
http://dx.doi.org/10.1093/bioinformatics/btac409
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