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

View ORCID ProfileEmil K. Gustavsson, View ORCID ProfileDavid Zhang, View ORCID ProfileRegina H. Reynolds, View ORCID ProfileSonia Garcia-Ruiz, View ORCID ProfileMina Ryten
doi: https://doi.org/10.1101/2022.03.28.486050
Emil K. Gustavsson
1Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK
3Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD, 20815
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  • ORCID record for Emil K. Gustavsson
David Zhang
1Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK
3Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD, 20815
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  • For correspondence: david.zhang.12@ucl.ac.uk
Regina H. Reynolds
1Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK
3Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD, 20815
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Sonia Garcia-Ruiz
1Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK
2NIHR Great Ormond Street Hospital Biomedical Research Centre, University College London, London, UK
3Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD, 20815
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Mina Ryten
1Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK
2NIHR Great Ormond Street Hospital Biomedical Research Centre, University College London, London, UK
3Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD, 20815
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Abstract

Motivation The advent of long-read sequencing technologies has increased demand for the visualisation 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 available at https://github.com/dzhang32/ggtranscript, DOI: https://doi.org/10.5281/zenodo.6374061

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://github.com/dzhang32/ggtranscript

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted March 29, 2022.
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ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
Emil K. Gustavsson, David Zhang, Regina H. Reynolds, Sonia Garcia-Ruiz, Mina Ryten
bioRxiv 2022.03.28.486050; doi: https://doi.org/10.1101/2022.03.28.486050
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ggtranscript: an R package for the visualization and interpretation of transcript isoforms using ggplot2
Emil K. Gustavsson, David Zhang, Regina H. Reynolds, Sonia Garcia-Ruiz, Mina Ryten
bioRxiv 2022.03.28.486050; doi: https://doi.org/10.1101/2022.03.28.486050

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