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FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data
MOTIVATION: Dot plots are heatmap-like charts that provide a compact way to simultaneously display two quantitative information by means of dots of different sizes and colors. Despite the popularity of this visualization method, particularly in single-cell RNA-sequencing (scRNA-seq) studies, existin...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9710660/ https://www.ncbi.nlm.nih.gov/pubmed/36699406 http://dx.doi.org/10.1093/bioadv/vbac019 |
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author | Leonard, Simon Lardenois, Aurélie Tarte, Karin Rolland, Antoine D Chalmel, Frédéric |
author_facet | Leonard, Simon Lardenois, Aurélie Tarte, Karin Rolland, Antoine D Chalmel, Frédéric |
author_sort | Leonard, Simon |
collection | PubMed |
description | MOTIVATION: Dot plots are heatmap-like charts that provide a compact way to simultaneously display two quantitative information by means of dots of different sizes and colors. Despite the popularity of this visualization method, particularly in single-cell RNA-sequencing (scRNA-seq) studies, existing tools used to make dot plots are limited in terms of functionality and usability. RESULTS: We developed FlexDotPlot, an R package for generating dot plots from multifaceted data, including scRNA-seq data. It provides a universal and easy-to-use solution with a high versatility. An interactive R Shiny application is also available allowing non-R users to easily generate dot plots with several tunable parameters. AVAILABILITY AND IMPLEMENTATION: Source code and detailed manual are available on CRAN (stable version) and at https://github.com/Simon-Leonard/FlexDotPlot (development version). Code to reproduce figures is available at https://github.com/Simon-Leonard/FlexDotPlot_paper. A Shiny app is available as a stand-alone application within the package. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics Advances online. |
format | Online Article Text |
id | pubmed-9710660 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-97106602023-01-24 FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data Leonard, Simon Lardenois, Aurélie Tarte, Karin Rolland, Antoine D Chalmel, Frédéric Bioinform Adv Application Note MOTIVATION: Dot plots are heatmap-like charts that provide a compact way to simultaneously display two quantitative information by means of dots of different sizes and colors. Despite the popularity of this visualization method, particularly in single-cell RNA-sequencing (scRNA-seq) studies, existing tools used to make dot plots are limited in terms of functionality and usability. RESULTS: We developed FlexDotPlot, an R package for generating dot plots from multifaceted data, including scRNA-seq data. It provides a universal and easy-to-use solution with a high versatility. An interactive R Shiny application is also available allowing non-R users to easily generate dot plots with several tunable parameters. AVAILABILITY AND IMPLEMENTATION: Source code and detailed manual are available on CRAN (stable version) and at https://github.com/Simon-Leonard/FlexDotPlot (development version). Code to reproduce figures is available at https://github.com/Simon-Leonard/FlexDotPlot_paper. A Shiny app is available as a stand-alone application within the package. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics Advances online. Oxford University Press 2022-03-23 /pmc/articles/PMC9710660/ /pubmed/36699406 http://dx.doi.org/10.1093/bioadv/vbac019 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 | Application Note Leonard, Simon Lardenois, Aurélie Tarte, Karin Rolland, Antoine D Chalmel, Frédéric FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title | FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title_full | FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title_fullStr | FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title_full_unstemmed | FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title_short | FlexDotPlot: a universal and modular dot plot visualization tool for complex multifaceted data |
title_sort | flexdotplot: a universal and modular dot plot visualization tool for complex multifaceted data |
topic | Application Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9710660/ https://www.ncbi.nlm.nih.gov/pubmed/36699406 http://dx.doi.org/10.1093/bioadv/vbac019 |
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